FF:857-27C9: Difference between revisions

Revision as of 22:48, 10 August 2017

Name:	whole body, embryo E12
Species:	Mouse (Mus musculus)
Library ID:	CNhs10587
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link

Additional information

Sample information

strain	C57BL/6J
tissue	whole body
dev stage	12 days embryo
sex	mixture
age	NA
cell type	CELL MIXTURE - tissue sample
cell line	NA
company	NA
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	NA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005965

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10587		CAGE		DRX009143		DRR010017

Accession ID Mm9

Library id		BAM		CTSS
CNhs10587		DRZ001442		DRZ002825

Accession ID Mm10

Library id		BAM		CTSS
CNhs10587		DRZ012792		DRZ014175

Download raw sequence, BAM & CTSS

Mm9

Fasta	BAM	CTSS
download	download	donwload

Mm10

BAM	CTSS
download	donwload

Relative expression to median (log10)

Transcription factors with enriched expression in this sampleRanked list of transcription factor promoter expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.

Co-expression clusters with enriched expression in this sampleRanked list of co-expression cluster expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed. Analyst:NA link to dataset. data

CNhs10587

0	0
1	0.112
10	0
100	0.146
1000	0
1001	-0.0749
1002	0.309
1003	0.0362
1004	0.255
1005	-0.0507
1006	-0.00509
1007	0.107
1008	0
1009	-0.143
101	0.101
1010	0
1011	0.122
1012	0
1013	-0.124
1014	0.0585
1015	0.251
1016	0.439
1017	0
1018	0.0503
1019	0
102	0
1020	0
1021	-0.0487
1022	-0.0924
1023	0
1024	-0.0523
1025	0.146
1026	0
1027	0.353
1028	0
1029	0.237
103	0
1030	0
1031	0.231
1032	-0.184
1033	0.0912
1034	0
1035	0
1036	0.0659
1037	0
1038	0.0417
1039	-0.238
104	0
1040	0.0835
1041	0

Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed. Analyst:NA link to dataset. data

TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample

JASPAR motifsSummary:Association of JASPAR motif to the promoter expression in thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression Analyst: Michiel de Hoon link to dataset. data

library id: CNhs10587

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	8.29221e-4
MA0003.1	MA0003.1	0.254
MA0004.1	MA0004.1	0.788
MA0006.1	MA0006.1	0.319
MA0007.1	MA0007.1	0.133
MA0009.1	MA0009.1	0.391
MA0014.1	MA0014.1	0.167
MA0017.1	MA0017.1	9.60547e-6
MA0018.2	MA0018.2	0.149
MA0019.1	MA0019.1	0.801
MA0024.1	MA0024.1	0.00235
MA0025.1	MA0025.1	0.174
MA0027.1	MA0027.1	0.179
MA0028.1	MA0028.1	0.579
MA0029.1	MA0029.1	0.495
MA0030.1	MA0030.1	0.733
MA0031.1	MA0031.1	0.0569
MA0035.2	MA0035.2	0.745
MA0038.1	MA0038.1	0.0121
MA0039.2	MA0039.2	0.0788
MA0040.1	MA0040.1	0.829
MA0041.1	MA0041.1	0.24
MA0042.1	MA0042.1	0.722
MA0043.1	MA0043.1	0.109
MA0046.1	MA0046.1	1.45241e-4
MA0047.2	MA0047.2	0.0164
MA0048.1	MA0048.1	0.469
MA0050.1	MA0050.1	3.79834e-8
MA0051.1	MA0051.1	4.73854e-4
MA0052.1	MA0052.1	0.236
MA0055.1	MA0055.1	0.809
MA0057.1	MA0057.1	0.0816
MA0058.1	MA0058.1	0.809
MA0059.1	MA0059.1	0.333
MA0060.1	MA0060.1	3.57506e-16
MA0061.1	MA0061.1	0.0699
MA0062.2	MA0062.2	0.132
MA0065.2	MA0065.2	1.51986e-5
MA0066.1	MA0066.1	0.104
MA0067.1	MA0067.1	0.737
MA0068.1	MA0068.1	0.713
MA0069.1	MA0069.1	0.688
MA0070.1	MA0070.1	0.3
MA0071.1	MA0071.1	0.0433
MA0072.1	MA0072.1	0.0282
MA0073.1	MA0073.1	0.968
MA0074.1	MA0074.1	0.445
MA0076.1	MA0076.1	0.939
MA0077.1	MA0077.1	0.0244
MA0078.1	MA0078.1	0.686
MA0079.2	MA0079.2	0.451
MA0080.2	MA0080.2	6.86274e-11
MA0081.1	MA0081.1	0.292
MA0083.1	MA0083.1	0.717
MA0084.1	MA0084.1	0.639
MA0087.1	MA0087.1	0.893
MA0088.1	MA0088.1	0.203
MA0090.1	MA0090.1	0.353
MA0091.1	MA0091.1	0.748
MA0092.1	MA0092.1	0.374
MA0093.1	MA0093.1	0.832
MA0099.2	MA0099.2	3.60048e-4
MA0100.1	MA0100.1	0.982
MA0101.1	MA0101.1	0.125
MA0102.2	MA0102.2	0.791
MA0103.1	MA0103.1	0.00612
MA0104.2	MA0104.2	0.993
MA0105.1	MA0105.1	0.00643
MA0106.1	MA0106.1	0.0811
MA0107.1	MA0107.1	0.0892
MA0108.2	MA0108.2	0.0114
MA0111.1	MA0111.1	0.37
MA0112.2	MA0112.2	3.59556e-6
MA0113.1	MA0113.1	0.222
MA0114.1	MA0114.1	1.61361e-4
MA0115.1	MA0115.1	0.00539
MA0116.1	MA0116.1	0.00889
MA0117.1	MA0117.1	0.572
MA0119.1	MA0119.1	0.0161
MA0122.1	MA0122.1	0.804
MA0124.1	MA0124.1	0.658
MA0125.1	MA0125.1	0.0114
MA0131.1	MA0131.1	0.652
MA0135.1	MA0135.1	0.0417
MA0136.1	MA0136.1	6.02806e-9
MA0137.2	MA0137.2	0.0734
MA0138.2	MA0138.2	0.321
MA0139.1	MA0139.1	0.0532
MA0140.1	MA0140.1	0.2
MA0141.1	MA0141.1	1.6363e-4
MA0142.1	MA0142.1	0.219
MA0143.1	MA0143.1	0.00825
MA0144.1	MA0144.1	0.063
MA0145.1	MA0145.1	0.0475
MA0146.1	MA0146.1	0.114
MA0147.1	MA0147.1	0.765
MA0148.1	MA0148.1	0.00211
MA0149.1	MA0149.1	0.00131
MA0150.1	MA0150.1	0.0144
MA0152.1	MA0152.1	0.946
MA0153.1	MA0153.1	2.86602e-4
MA0154.1	MA0154.1	0.00295
MA0155.1	MA0155.1	0.735
MA0156.1	MA0156.1	0.00213
MA0157.1	MA0157.1	0.0836
MA0159.1	MA0159.1	0.00364
MA0160.1	MA0160.1	0.00414
MA0162.1	MA0162.1	0.307
MA0163.1	MA0163.1	2.14579e-4
MA0164.1	MA0164.1	0.994
MA0258.1	MA0258.1	4.73581e-4
MA0259.1	MA0259.1	0.973

FANTOM5 phase1 novel unique motifsSummary:Association of the 169 novel and unique motifs discovered in FANTOM5 phase1 in this sample. Among the de-novo motifs discovered by DMF, HOMER,ChIPMunk, and ScanAll, only novel motifs are selected after comparison with known motif sets, and their clustering based on MACRO-APE resulted in169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above Analyst: Michiel de Hoon link to dataset. data

library id: CNhs10587

Novel motif	Logo	P-value
1	1	0.039
10	10	0.0687
100	100	0.942
101	101	0.735
102	102	0.64
103	103	0.0304
104	104	0.904
105	105	0.313
106	106	0.0324
107	107	0.197
108	108	0.782
109	109	0.0139
11	11	0.0393
110	110	0.068
111	111	0.0207
112	112	0.00814
113	113	0.958
114	114	0.0169
115	115	0.484
116	116	0.28
117	117	0.0225
118	118	0.565
119	119	0.127
12	12	0.954
120	120	0.924
121	121	0.464
122	122	0.895
123	123	0.61
124	124	0.653
125	125	0.273
126	126	0.209
127	127	0.226
128	128	0.0524
129	129	0.147
13	13	0.00838
130	130	0.883
131	131	0.781
132	132	0.26
133	133	0.42
134	134	0.983
135	135	0.718
136	136	0.093
137	137	0.582
138	138	0.852
139	139	0.0139
14	14	0.471
140	140	0.0138
141	141	0.208
142	142	0.852
143	143	0.196
144	144	0.799
145	145	0.129
146	146	0.672
147	147	0.627
148	148	0.0864
149	149	0.155
15	15	0.0751
150	150	0.356
151	151	0.328
152	152	0.0722
153	153	0.193
154	154	0.542
155	155	0.585
156	156	0.0538
157	157	0.731
158	158	0.359
159	159	0.551
160	160	0.365
161	161	0.223
162	162	0.979
163	163	0.436
164	164	0.0267
165	165	0.344
166	166	0.84
167	167	0.306
168	168	0.898
169	169	0.00198
17	17	0.051
18	18	0.612
19	19	0.147
2	2	0.999
20	20	0.589
21	21	0.596
22	22	0.201
23	23	0.262
24	24	0.171
25	25	0.371
26	26	0.0378
27	27	0.592
28	28	0.478
29	29	0.12
3	3	0.0807
30	30	0.825
31	31	0.594
32	32	0.2
33	33	0.24
34	34	0.891
35	35	0.332
36	36	0.14
37	37	0.0204
38	38	0.274
39	39	0.345
4	4	0.72
40	40	0.191
41	41	0.44
42	42	0.332
43	43	0.119
44	44	0.0169
45	45	0.788
46	46	0.139
47	47	0.079
48	48	0.0535
49	49	0.115
5	5	0.135
50	50	0.85
51	51	0.473
52	52	0.51
53	53	0.946
54	54	0.602
55	55	0.354
56	56	0.397
57	57	0.293
58	58	0.168
59	59	0.0893
6	6	0.562
60	60	0.1
61	61	0.231
62	62	0.0623
63	63	0.113
64	64	0.431
65	65	0.155
66	66	0.902
67	67	0.665
68	68	0.18
69	69	0.623
7	7	0.106
70	70	2.14811e-4
71	71	0.0446
72	72	0.498
73	73	0.0341
74	74	0.351
75	75	0.021
76	76	0.554
77	77	0.178
78	78	0.115
79	79	0.0875
8	8	0.0524
80	80	0.559
81	81	0.536
82	82	0.0834
83	83	0.117
84	84	0.711
85	85	0.0331
86	86	0.251
87	87	0.263
88	88	0.553
89	89	0.176
9	9	0.553
90	90	0.00561
91	91	0.352
92	92	0.0787
93	93	0.454
94	94	0.582
95	95	0.0553
96	96	0.379
97	97	0.604
98	98	0.482
99	99	0.565

de novo motifs identified by HOMER in promoters active in this sampleSummary:The result of HOMER in this sample is shown. Analyst:NA library id: CNhs10587

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011434 mouse whole body- embryo E12 sample

Ancestor terms (non development)Summary:Connected ontology terms with is_a, part_of or located_in relationship Analyst: Hideya Kawaji link to source data data

UBERON: Anatomy
0000468 (multi-cellular organism)
0000922 (embryo)
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000295 (mouse embryonic day 12 sample)
0011434 (mouse whole body- embryo E12 sample)

Ancestor terms (development)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship Analyst: Hideya Kawaji link to source data data
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005965
+|accession_numbers=CAGE;DRX009143;DRR010017;DRZ001442;DRZ002825;DRZ012792;DRZ014175
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062
 |ancestors_in_cell_lineage_facet=
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr12:34642510..34642530,+!p1@Twist1!1.92!248.19!Twist1;;chr3:101814061..101814094,+!p1@Nhlh2!1.77!57.86!Nhlh2;;chr1:140739014..140739032,-!p1@Lhx9!1.74!68.23!Lhx9;;chr3:127336052..127336058,+!p1@Neurog2!1.70!49.08!Neurog2;;chr7:56892217..56892221,-!p1@Dbx1!1.61!39.90!Dbx1;;chr12:28027561..28027591,-!p1@Sox11!1.59!239.02!Sox11;;chr10:119914001..119914078,-!p4@Hmga2!1.55!46.29!Hmga2;;chr2:151907546..151907561,+!p1@Scrt2!1.55!34.32!Scrt2;;chr4:154335024..154335039,+!p1@Hes5!1.53!39.50!Hes5;;chr10:119913278..119913298,-!p2@Hmga2!1.52!69.83!Hmga2;;chr10:119913546..119913583,-!p3@Hmga2!1.52!66.24!Hmga2;;chr11:96143666..96143725,+!p1@Hoxb8!1.52!36.71!Hoxb8;;chr15:102828658..102828678,+!p1@Hoxc6!1.50!30.33!Hoxc6;;chr2:38206580..38206600,+!p2@Lhx2!1.49!36.71!Lhx2;;chr12:3891810..3891829,+!p2@Dnmt3a!1.47!43.49!Dnmt3a;;chr11:84339016..84339044,-!p1@Lhx1!1.47!28.73!Lhx1;;chr9:91260594..91260612,-!p1@Zic1!1.47!28.33!Zic1;;chr1:165243379..165243402,-!p3@Prrx1!1.45!39.90!Prrx1;;chr17:86087592..86087615,-!p1@Six2!1.43!25.94!Six2;;chr12:74147689..74147711,-!p1@Six1!1.42!54.27!Six1;;chr3:99057269..99057306,+!p1@Tbx15!1.42!30.33!Tbx15;;chr13:56353536..56353542,-!p1@Neurog1!1.40!24.34!Neurog1;;chrX:58146612..58146615,-!p1@Sox3!1.40!23.94!Sox3;;chrX:108009761..108009788,+!p1@Pou3f4!1.39!23.54!Pou3f4;;chr13:53568104..53568156,-!p1@Msx2!1.38!33.52!Msx2;;chr2:79296783..79296801,-!p1@Neurod1!1.38!22.74!Neurod1;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!1.37!27.93!Pou3f3;;chr8:87425854..87425891,+!p1@Klf1!1.37!22.35!Klf1;;chr10:119913310..119913366,-!p1@Hmga2!1.36!166.79!Hmga2;;chr2:71384802..71384815,-!p1@Dlx2!1.36!26.73!Dlx2;;chr2:146047829..146047847,+!p1@Insm1!1.35!38.31!Insm1;;chr1:165243591..165243625,-!p2@Prrx1!1.34!31.92!Prrx1;;chr7:53631837..53631850,+!p1@Myod1!1.34!20.75!Myod1;;chr10:86956396..86956411,-!p1@Ascl1!1.31!29.53!Ascl1;;chr14:49287186..49287225,-!p1@Otx2!1.31!19.55!Otx2;;chr2:31495237..31495243,+!p1@Prdm12!1.30!19.15!Prdm12;;chr15:102797288..102797302,+!p1@Hoxc10!1.29!18.36!Hoxc10;;chr12:54349410..54349461,+!p1@Npas3!1.28!21.55!Npas3;;chr13:99124189..99124205,+!p1@Foxd1!1.25!25.14!Foxd1;;chr14:104867201..104867258,-!p1@Pou4f1!1.24!23.14!Pou4f1;;chr9:71743854..71743909,-!p1@Tcf12!1.23!125.29!Tcf12;;chr9:91260616..91260653,-!p2@Zic1!1.23!15.96!Zic1;;chr1:19199236..19199258,+!p1@Tfap2b!1.23!15.96!Tfap2b;;chr7:144505957..144505972,-!p2@Ebf3!1.22!19.15!Ebf3;;chr5:38215819..38215823,-!p1@Msx1!1.21!39.10!Msx1;;chr15:103085660..103085681,-!p1@Nfe2!1.19!21.55!Nfe2;;chr13:55932591..55932622,-!p1@Pitx1!1.18!17.16!Pitx1;;chrX:55283799..55283813,+!p1@Zic3!1.18!13.97!Zic3;;chr10:102491405..102491416,-!p1@Alx1!1.16!13.57!Alx1;;chr2:28477452..28477483,-!p1@Gfi1b!1.15!16.36!Gfi1b;;chr12:30213247..30213333,+!p1@Myt1l!1.15!13.17!Myt1l;;chr15:76352677..76352737,-!p3@Scrt1!1.14!12.77!Scrt1;;chr2:74513125..74513143,+!p1@Hoxd12!1.14!12.77!Hoxd12;;chr1:136186574..136186592,+!p1@Myog!1.14!12.77!Myog;;chr12:3891753..3891801,+!p4@Dnmt3a!1.13!20.35!Dnmt3a;;chr13:72766250..72766273,+!p1@Irx2!1.13!19.15!Irx2;;chr1:78193687..78193692,-!p1@Pax3!1.13!12.37!Pax3;;chr5:148000254..148000260,+!p1@Gsx1!1.13!12.37!Gsx1;;chr13:40829137..40829205,-!p1@Tfap2a!1.12!13.57!Tfap2a;;chr7:147234982..147234988,-!p1@Msx3!1.11!11.97!Msx3;;chr11:96153767..96153822,+!p1@Hoxb6!1.10!17.96!Hoxb6;;chr12:37835120..37835133,+!p2@Meox2!1.10!16.76!Meox2;;chr5:140019843..140019858,+!p2@Uncx!1.10!11.57!Uncx;;chr6:52184901..52184959,-!p2@Hoxa10!1.10!11.57!Hoxa10;;chr2:147190725..147190747,+!p2@Pax1!1.10!11.57!Pax1;;chr7:144506077..144506128,-!p1@Ebf3!1.09!25.94!Ebf3;;chr1:173987720..173987729,-!p1@Nhlh1!1.09!11.17!Nhlh1;;chr13:15555670..15555771,+!p2@Gli3!1.08!28.33!Gli3;;chr8:111227518..111227550,+!p@chr8:111227518..111227550,+!1.08!19.15!Zfhx3;;chr14:67853425..67853454,+!p1@Ebf2!1.08!15.56!Ebf2;;chr11:101755669..101755686,-!p1@Meox1!1.07!19.55!Meox1;;chr2:38206744..38206766,+!p1@Lhx2!1.07!13.17!Lhx2;;chr12:57796615..57796687,+!p1@Pax9!1.07!10.77!Pax9;;chr16:25801993..25802014,+!p1@Trp63!1.07!10.77!Trp63;;chr3:95032091..95032183,-!p1@Mllt11!1.06!89.38!Mllt11;;chr12:109242266..109242295,-!p1@Bcl11b!1.06!87.79!Bcl11b;;chr4:114732112..114732158,+!p1@Tal1!1.06!23.14!Tal1;;chr2:74549968..74549996,+!p1@Hoxd3!1.06!13.17!Hoxd3;;chr6:52190467..52190500,-!p1@Hoxa10!1.06!10.37!Hoxa10;;chr6:55631042..55631102,-!p1@Neurod6!1.06!10.37!Neurod6;;chr3:5218516..5218544,+!p2@Zfhx4!1.05!15.56!Zfhx4;;chr8:59799772..59799789,+!p1@Hand2!1.04!28.73!Hand2;;chr6:52176164..52176195,-!p1@Hoxa9!1.04!12.37!Hoxa9;;chr6:6832076..6832092,-!p1@Dlx5!1.04!11.57!Dlx5;;chr4:150503457..150503498,-!p3@Camta1!1.04!11.17!Camta1;;chr4:53792566..53792578,+!p1@Tal2!1.04!9.98!Tal2;;chr5:120881900..120881914,+!p1@Lhx5!1.04!9.98!Lhx5;;chr13:48758276..48758291,+!p1@Barx1!1.04!9.98!Barx1;;chr1:6720216..6720232,+!p1@St18!1.04!9.98!St18;;chr6:14851440..14851497,+!p2@Foxp2!1.03!23.94!Foxp2;;chr4:13670499..13670526,+!p2@Runx1t1!1.03!21.55!Runx1t1;;chr13:117099847..117099907,-!p1@Isl1!1.03!17.96!Isl1;;chr8:111227493..111227517,+!p@chr8:111227493..111227517,+!1.02!16.76!Zfhx3;;chr10:119913792..119913820,-!p5@Hmga2!1.02!16.36!Hmga2;;chrX:7544943..7545001,-!p1@Gata1!1.02!9.58!Gata1;;chr15:76353005..76353021,-!p2@Scrt1!1.02!9.58!Scrt1;;chr13:72766279..72766296,+!p2@Irx2!1.01!13.97!Irx2;;chr15:76352832..76352900,-!p1@Scrt1!1.01!9.18!Scrt1;;chr19:55968967..55968991,+!p7@Tcf7l2!1.01!9.18!Tcf7l2;;chr10:12810631..12810649,+!p1@Plagl1!1.00!240.21!Plagl1;;chr14:67853457..67853482,+!p2@Ebf2!1.00!12.77!Ebf2;;chr19:59533221..59533271,+!p1@Emx2!1.00!11.17!Emx2;;chr15:102087737..102087801,-!p3@Rarg!0.99!14.76!Rarg;;chr2:30700788..30700824,+!p2@Prrx2!0.99!13.57!Prrx2;;chr7:30088977..30089002,+!p2@Dpf1!0.99!12.37!Dpf1;;chr2:147190749..147190769,+!p1@Pax1!0.99!8.78!Pax1;;chr4:54957910..54957954,+!p2@Zfp462!0.97!25.54!Zfp462;;chr6:52163319..52163342,-!p1@Hoxa3!0.97!12.37!Hoxa3;;chr13:44936126..44936164,+!p6@Jarid2!0.97!9.58!Jarid2;;chr11:96160360..96160397,+!p3@Hoxb6!0.97!8.38!Hoxb6;;chr1:91827756..91827773,-!p1@Gbx2!0.97!8.38!Gbx2;;chr14:56443806..56443848,+!p1@Nfatc4!0.96!16.76!Nfatc4;;chr7:116154364..116154444,+!p1@Tub!0.96!14.36!Tub;;chr2:65683890..65683907,+!p1@Csrnp3!0.95!15.56!Csrnp3;;chr3:130813736..130813752,+!p3@Lef1!0.95!11.17!Lef1;;chrX:90531838..90531861,+!p1@Arx!0.95!9.98!Arx;;chr11:21901608..21901634,-!p1@Otx1!0.95!7.98!Otx1;;chr10:129717274..129717298,-!p1@Neurod4!0.95!7.98!Neurod4;;chr3:66785857..66785873,-!p1@Shox2!0.95!7.98!Shox2;;chrX:108009734..108009752,+!p2@Pou3f4!0.95!7.98!Pou3f4;;chr8:12395603..12395621,+!p1@Sox1!0.95!7.98!Sox1;;chr17:48061584..48061601,-!p2@Foxp4!0.94!52.27!Foxp4;;chr15:76352740..76352781,-!p5@Scrt1!0.93!7.58!Scrt1;;chr14:118636238..118636257,-!p2@Sox21!0.93!7.58!Sox21;;chr1:136186545..136186554,+!p2@Myog!0.93!7.58!Myog;;chr9:74709695..74709722,+!p1@Onecut1!0.93!7.58!Onecut1;;chr10:84218895..84218909,+!p1@Rfx4!0.93!7.58!Rfx4;;chr11:96132637..96132652,+!p1@Hoxb9!0.93!7.58!Hoxb9;;chr8:90483433..90483457,-!p2@Zfp423!0.92!9.98!Zfp423;;chr6:6831928..6831949,-!p3@Dlx5!0.91!7.18!Dlx5;;chr2:181498020..181498040,+!p5@Myt1!0.91!7.18!Myt1;;chr2:71367871..71367898,+!p1@Dlx1!0.91!7.18!Dlx1;;chr19:7342725..7342784,+!p1@Rcor2!0.90!29.53!Rcor2;;chr11:23978353..23978379,+!p10@Bcl11a!0.90!8.38!Bcl11a;;chr17:37139472..37139514,+!p1@Zfp57!0.89!48.28!Zfp57;;chr8:111227354..111227401,+!p@chr8:111227354..111227401,+!0.89!9.18!Zfhx3;;chr13:31898767..31898785,+!p4@Foxc1!0.89!8.38!Foxc1;;chr9:24578720..24578735,-!p1@Tbx20!0.89!6.78!Tbx20;;chr9:55388997..55389016,+!p1@Isl2!0.89!6.78!Isl2;;chr6:52158644..52158677,-!p2@Hoxa6!0.89!6.78!Hoxa6;;chr5:140019865..140019886,+!p1@Uncx!0.89!6.78!Uncx;;chr13:31717548..31717596,+!p1@Foxf2!0.88!13.57!Foxf2;;chr3:34548909..34548927,+!p1@Sox2!0.87!11.17!Sox2;;chr15:50721942..50721987,-!p13@Trps1!0.87!7.58!Trps1;;chr17:44951553..44951586,-!p2@Runx2!0.87!7.18!Runx2;;chr16:91225808..91225824,+!p1@Olig2!0.87!6.38!Olig2;;chrX:55284180..55284195,+!p2@Zic3!0.87!6.38!Zic3;;chr10:84218800..84218829,+!p2@Rfx4!0.87!6.38!Rfx4;;chr11:21901587..21901604,-!p2@Otx1!0.87!6.38!Otx1;;chr11:96160426..96160443,+!p2@Hoxb6!0.87!6.38!Hoxb6;;chr3:99057256..99057268,+!p3@Tbx15!0.87!6.38!Tbx15;;chr5:106887474..106887489,-!p1@Barhl2!0.87!6.38!Barhl2;;chr13:72101178..72101203,-!p1@Irx1!0.86!9.98!Irx1;;chr6:52167459..52167492,-!p1@Hoxa7!0.86!7.58!Hoxa7;;chr11:112643496..112643562,+!p1@Sox9!0.85!239.02!Sox9;;chr15:75447162..75447217,+!p2@Zfp41!0.85!18.75!Zfp41;;chr8:94325847..94325869,-!p3@Irx3!0.85!9.98!Irx3;;chr18:64499706..64499721,+!p2@Onecut2!0.85!8.78!Onecut2;;chr3:130813200..130813252,+!p1@Lef1!0.84!28.33!Lef1;;chr3:5218629..5218684,+!p1@Zfhx4!0.84!20.35!Zfhx4;;chr12:37835141..37835194,+!p1@Meox2!0.84!19.15!Meox2;;chr2:152223586..152223604,-!p5@Sox12!0.84!8.78!Sox12;;chr1:19199151..19199170,+!p3@Tfap2b!0.84!5.99!Tfap2b;;chr2:93482464..93482491,+!p1@Alx4!0.84!5.99!Alx4;;chr7:6649134..6649167,-!p1@Zim1!0.83!33.52!Zim1;;chr2:152223783..152223812,-!p4@Sox12!0.83!13.97!Sox12;;chr9:87626083..87626108,-!p1@Tbx18!0.83!13.17!Tbx18;;chr3:5218546..5218561,+!p4@Zfhx4!0.83!9.18!Zfhx4;;chr14:56443781..56443800,+!p3@Nfatc4!0.83!7.58!Nfatc4;;chr14:67853632..67853674,+!p3@Ebf2!0.83!7.18!Ebf2;;chr13:40826150..40826167,-!p3@Tfap2a!0.83!6.38!Tfap2a;;chr8:111227641..111227672,+!p@chr8:111227641..111227672,+!0.82!15.96!Zfhx3;;chr11:3189683..3189744,+!p2@Patz1!0.82!11.97!Patz1;;chr7:30092993..30093076,+!p1@Dpf1!0.82!9.98!Dpf1;;chr13:72101161..72101177,-!p2@Irx1!0.82!7.98!Irx1;;chr11:94981424..94981439,+!p1@Dlx3!0.82!6.38!Dlx3;;chr11:96132767..96132796,+!p2@Hoxb9!0.82!5.59!Hoxb9;;chr11:98190918..98190951,-!p1@Neurod2!0.82!5.59!Neurod2;;chr11:85699862..85699920,+!p1@Tbx4!0.82!5.59!Tbx4;;chr13:44936077..44936096,+!p9@Jarid2!0.82!5.59!Jarid2;;chr15:102820946..102820961,+!p3@Hoxc8!0.82!5.59!Hoxc8;;chr2:74583776..74583815,+!p3@Hoxd3!0.82!5.59!Hoxd3;;chr2:74529970..74529997,+!p1@Hoxd10!0.82!5.59!Hoxd10;;chr6:85137520..85137563,+!p1@Emx1!0.82!5.59!Emx1;;chr1:19199221..19199234,+!p6@Tfap2b!0.82!5.59!Tfap2b;;chr1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Grhl3;;chr4:63071717..63071736,-!p4@Akna!0.56!3.99!Akna;;chr19:19185697..19185711,-!p2@Rorb!0.56!3.59!Rorb;;chr6:52154386..52154407,-!p2@Hoxa5!0.56!3.59!Hoxa5;;chr11:44430877..44430899,+!p6@Ebf1!0.56!3.59!Ebf1;;chr2:180069370..180069409,-!p1@Gata5!0.56!3.19!Gata5;;chr7:52472041..52472065,+!p2@Tead2!0.56!3.19!Tead2;;chr1:136456791..136456810,+!p1@Kdm5b!0.55!115.32!Kdm5b;;chr13:15555079..15555136,+!p3@Gli3!0.55!9.58!Gli3;;chr14:52634234..52634281,-!p3@Zfp219!0.55!8.38!Zfp219;;chr8:92872242..92872285,-!p1@Tox3!0.55!7.58!Tox3;;chr15:50720601..50720630,-!p2@Trps1!0.55!7.18!Trps1;;chr4:87678673..87678706,-!p6@Mllt3!0.55!6.38!Mllt3;;chr18:79306029..79306059,-!p2@Setbp1!0.55!6.38!Setbp1;;chr9:122812356..122812381,+!p@chr9:122812356..122812381,+!0.55!5.59!Gm8008;;chr16:43503594..43503634,+!p15@Zbtb20!0.55!3.19!Zbtb20;;chr1:93698095..93698113,+!p3@Twist2!0.55!3.19!Twist2;;chr7:123182248..123182264,-!p3@Sox6!0.55!3.19!Sox6;;chr13:29045559..29045574,-!p1@Sox4!0.54!263.36!Sox4;;chr7:11080671..11080750,-!p1@Zik1!0.54!21.55!Zik1;;chr10:79896328..79896339,-!p3@Tcf3!0.54!10.37!Tcf3;;chrX:45245644..45245666,-!p2@Smarca1!0.54!9.58!Smarca1;;chr4:84320893..84320910,-!p1@Bnc2!0.54!6.38!Bnc2;;chr8:94325814..94325839,-!p2@Irx3!0.54!5.99!Irx3;;chr4:13712228..13712267,+!p3@Runx1t1!0.54!4.79!Runx1t1;;chr1:135557526..135557551,-!p1@Zbed6!0.54!4.39!Zbed6;;chr2:156666727..156666753,+!p2@Tgif2!0.54!3.99!Tgif2;;chr12:109242296..109242307,-!p3@Bcl11b!0.54!3.99!Bcl11b;;chrX:110411840..110411860,+!p1@Dach2!0.54!3.19!Dach2;;chr14:52936008..52936019,-!p5@Sall2!0.54!3.19!Sall2;;chr15:99532709..99532743,+!p1@Smarcd1!0.53!80.20!Smarcd1;;chr2:167363692..167363710,+!p1@Snai1!0.53!37.11!Snai1;;chr14:98568761..98568814,-!p2@Dach1!0.53!20.35!Dach1;;chr18:69504157..69504184,+!p3@Tcf4!0.53!18.75!Tcf4;;chr14:98569030..98569059,-!p3@Dach1!0.53!14.36!Dach1;;chr10:79896347..79896358,-!p2@Tcf3!0.53!10.37!Tcf3;;chr7:77511403..77511450,-!p3@Nr2f2!0.53!5.99!Nr2f2;;chr14:76814784..76814803,+!p7@Tsc22d1!0.53!5.19!Tsc22d1;;chr9:72380594..72380635,+!p3@Rfx7!0.53!4.79!Rfx7;;chr11:98789140..98789168,+!p5@Rara!0.53!4.39!Rara;;chr3:30408674..30408716,-!p2@Mecom!0.53!4.39!Mecom;;chr2:70313168..70313184,+!p1@Sp5!0.53!3.99!Sp5;;chr9:96159116..96159130,+!p6@Tfdp2!0.53!3.19!Tfdp2;;chr11:23977742..23977794,+!p6@Bcl11a!0.53!3.19!Bcl11a;;chr10:42303385..42303401,-!p1@Nr2e1!0.53!2.39!Nr2e1;;chr10:106923133..106923146,-!p1@Myf5!0.53!2.39!Myf5;;chr10:119913266..119913277,-!p6@Hmga2!0.53!2.39!Hmga2;;chr3:130813756..130813767,+!p8@Lef1!0.53!2.39!Lef1;;chr3:130813586..130813604,+!p7@Lef1!0.53!2.39!Lef1;;chr2:9809357..9809371,-!p2@Gata3!0.53!2.39!Gata3;;chr3:128902878..128902893,+!p6@Pitx2!0.53!2.39!Pitx2;;chr3:153991607..153991627,-!p2@Lhx8!0.53!2.39!Lhx8;;chr4:133312435..133312454,-!p22@Arid1a!0.53!2.39!Arid1a;;chr4:97248652..97248671,+!p19@Nfia!0.53!2.39!Nfia;;chr2:71366660..71366702,+!p3@Dlx1!0.53!2.39!Dlx1;;chr14:76815156..76815181,+!p16@Tsc22d1!0.53!2.39!Tsc22d1;;chr13:83643159..83643226,+!p3@Mef2c!0.53!2.39!Mef2c;;chr13:55937467..55937516,-!p3@Pitx1!0.53!2.39!Pitx1;;chr14:122874619..122874634,+!p1@Zic2!0.53!2.39!Zic2;;chr2:181501710..181501742,+!p2@Myt1!0.53!2.39!Myt1;;chr19:59533139..59533152,+!p2@Emx2!0.53!2.39!Emx2;;chr1:169528823..169528860,+!p5@Rxrg!0.53!2.39!Rxrg;;chr2:65768149..65768173,+!p4@Csrnp3!0.53!2.39!Csrnp3;;chr7:144505876..144505884,-!p9@Ebf3!0.53!2.39!Ebf3;;chr6:52176144..52176161,-!p2@Hoxa9!0.53!2.39!Hoxa9;;chr6:52184880..52184893,-!p6@Hoxa10!0.53!2.39!Hoxa10;;chr6:6813269..6813272,+!p2@Dlx6!0.53!2.39!Dlx6;;chr6:144157991..144158007,-!p9@Sox5!0.53!2.39!Sox5;;chr17:44951431..44951445,-!p3@Runx2!0.53!2.39!Runx2;;chr11:62602904..62602945,-!p1@Zfp286!0.52!13.57!Zfp286;;chr9:96159665..96159680,+!p3@Tfdp2!0.52!13.17!Tfdp2;;chr4:6917606..6917681,-!p1@Tox!0.52!11.97!Tox;;chr2:56967334..56967366,-!p1@Nr4a2!0.52!5.59!Nr4a2;;chr5:120120667..120120685,+!p3@Tbx3!0.52!5.19!Tbx3;;chr16:18587076..18587106,-!p1@Tbx1!0.52!3.59!Tbx1;;chr15:76755821..76755835,-!p2@Zfp647!0.52!3.19!Zfp647;;chr10:92773591..92773623,-!p1@Elk3!0.51!65.04!Elk3;;chr7:17199897..17199955,-!p1@Grlf1!0.51!33.12!Grlf1;;chr4:87678743..87678767,-!p7@Mllt3!0.51!6.38!Mllt3;;chr14:17407878..17407926,-!p1@Rarb!0.51!5.99!Rarb;;chr14:22807216..22807231,-!p3@Zfp503!0.51!4.39!Zfp503;;chr15:102865088..102865107,+!p1@Hoxc4!0.51!3.19!Hoxc4;;chr17:37139519..37139531,+!p5@Zfp57!0.51!2.79!Zfp57;;chr1:179374784..179374800,+!p2@Zfp238!0.51!2.79!Zfp238;;chr9:110034519..110034606,+!p1@Smarcc1!0.50!124.50!Smarcc1;;chr18:80909801..80909819,-!p1@Nfatc1!0.50!16.36!Nfatc1;;chr14:55711198..55711258,-!p1@Zfhx2!0.50!15.96!Zfhx2;;chr4:61869460..61869521,-!p1@Zfp37!0.50!14.76!Zfp37;;chr2:152223469..152223512,-!p1@Sox12!0.50!14.36!Sox12;;chr19:28086084..28086124,-!p6@Rfx3!0.50!7.58!Rfx3;;chr9:18278055..18278126,-!p1@Zfp558!0.50!7.58!Zfp558;;chr8:92872177..92872201,-!p2@Tox3!0.50!4.39!Tox3;;chr16:4594853..4594884,+!p3@Glis2!0.50!3.99!Glis2;;chr19:55817629..55817652,+!p14@Tcf7l2!0.50!3.19!Tcf7l2;;chr2:84877369..84877459,+!p1@Ssrp1!0.49!59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ox5!0.34!1.20!Sox5;;chr5:75471615..75471622,+!p1@Gsx2!0.34!1.20!Gsx2;;chr5:67490474..67490494,-!p2@Phox2b!0.34!1.20!Phox2b;;chr6:70906450..70906454,+!p1@Foxi3!0.34!1.20!Foxi3;;chr6:52195747..52195762,-!p3@Hoxa11!0.34!1.20!Hoxa11;;chr6:6812988..6813002,+!p3@Dlx6!0.34!1.20!Dlx6;;chr5:24104540..24104584,-!p7@Smarcd3!0.34!1.20!Smarcd3;;chr6:52158693..52158704,-!p3@Hoxa6!0.34!1.20!Hoxa6;;chr7:144506051..144506062,-!p5@Ebf3!0.34!1.20!Ebf3;;chr7:144505906..144505913,-!p7@Ebf3!0.34!1.20!Ebf3;;chr7:144505942..144505949,-!p10@Ebf3!0.34!1.20!Ebf3;;chr5:120285130..120285141,+!p3@Tbx5!0.34!1.20!Tbx5;;chr2:168592636..168592651,-!p1@Sall4!0.34!1.20!Sall4;;chr1:140743964..140743976,-!p3@Lhx9!0.34!1.20!Lhx9;;chr2:168427068..168427115,-!p3@Nfatc2!0.34!1.20!Nfatc2;;chr1:57028594..57028604,-!p10@Satb2!0.34!1.20!Satb2;;chr1:179374820..179374831,+!p3@Zfp238!0.34!1.20!Zfp238;;chr1:42752559..42752566,+!p@chr1:42752559..42752566,+!0.34!1.20!Pou3f3;;chr2:151907110..151907126,+!p6@Scrt2!0.34!1.20!Scrt2;;chr1:167865149..167865167,-!p3@Pou2f1!0.34!1.20!Pou2f1;;chr19:55967803..55967834,+!p12@Tcf7l2!0.34!1.20!Tcf7l2;;chr2:180069423..180069434,-!p2@Gata5!0.34!1.20!Gata5;;chr2:61642631..61642684,+!p1@Tbr1!0.34!1.20!Tbr1;;chr1:42752654..42752665,+!p@chr1:42752654..42752665,+!0.34!1.20!Pou3f3;;chr19:55969887..55969904,+!p9@Tcf7l2!0.34!1.20!Tcf7l2;;chr1:57028157..57028173,-!p3@Satb2!0.34!1.20!Satb2;;chr19:55969946..55969973,+!p8@Tcf7l2!0.34!1.20!Tcf7l2;;chr19:46222859..46222876,-!p1@Pitx3!0.34!1.20!Pitx3;;chr18:11052516..11052525,+!p5@Gata6!0.34!1.20!Gata6;;chr17:86020468..86020504,+!p6@Six3!0.34!1.20!Six3;;chr18:77094894..77094905,+!p2@Skor2!0.34!1.20!Skor2;;chr16:25684232..25684285,+!p2@Trp63!0.34!1.20!Trp63;;chr17:26978409..26978442,-!p1@Nkx2-5!0.34!1.20!Nkx2-5;;chr4:135728473..135728494,+!p5@E2f2!0.34!1.20!E2f2;;chr3:17954392..17954407,+!p2@Bhlhe22!0.34!1.20!Bhlhe22;;chr2:71368815..71368836,+!p4@Dlx1!0.34!1.20!Dlx1;;chr4:13678514..13678539,+!p14@Runx1t1!0.34!1.20!Runx1t1;;chr4:150482353..150482386,-!p6@Camta1!0.34!1.20!Camta1;;chr4:44717308..44717321,-!p6@Pax5!0.34!1.20!Pax5;;chr2:71367979..71367993,+!p7@Dlx1!0.34!1.20!Dlx1;;chr4:97248389..97248402,+!p21@Nfia!0.34!1.20!Nfia;;chr4:84192360..84192376,-!p8@Bnc2!0.34!1.20!Bnc2;;chr3:130813254..130813263,+!p4@Lef1!0.34!1.20!Lef1;;chr3:102768047..102768060,-!p1@Nr1h5!0.34!1.20!Nr1h5;;chr10:19076194..19076197,+!p2@Olig3!0.34!1.20!Olig3;;chr10:119913301..119913302,-!p11@Hmga2!0.34!1.20!Hmga2;;chr11:96160068..96160084,+!p6@Hoxb6!0.34!1.20!Hoxb6;;chr11:85703483..85703508,+!p2@Tbx4!0.34!1.20!Tbx4;;chr11:96132456..96132467,+!p4@Hoxb9!0.34!1.20!Hoxb9;;chr9:91256933..91256954,+!p4@Zic4!0.34!1.20!Zic4;;chr8:123651727..123651748,+!p1@ENSMUST00000062634!0.34!1.20!Foxl1;;chr9:98855944..98855971,+!p4@Foxl2!0.34!1.20!Foxl2;;chr8:81551868..81551877,+!p13@Zfp827!0.34!1.20!Zfp827;;chr9:99776617..99776631,-!p2@Sox14!0.34!1.20!Sox14;;chr8:12395874..12395885,+!p2@Sox1!0.34!1.20!Sox1;;chr6:64992569..64992656,+!p1@Smarcad1!0.33!57.06!Smarcad1;;chr17:57074836..57074927,-!p1@Mllt1!0.33!51.87!Mllt1;;chr9:22112085..22112138,-!p1@Zfp810!0.33!23.94!Zfp810;;chr2:165213745..165213815,-!p1@Zfp334!0.33!16.76!Zfp334;;chr7:13063668..13063721,+!p1@Zfp606!0.33!12.77!Zfp606;;chr2:162880327..162880385,+!p2@Mybl2!0.33!12.37!Mybl2;;chr7:56136362..56136400,-!p1@E2f8!0.33!11.97!E2f8;;chr12:77470507..77470572,-!p2@Zbtb25!0.33!6.78!Zbtb25;;chr18:69504123..69504155,+!p5@Tcf4!0.33!6.38!Tcf4;;chr19:53384910..53384937,+!p3@Mxi1!0.33!4.79!Mxi1;;chr18:55152179..55152194,-!p5@Zfp608!0.33!4.79!Zfp608;;chr9:63869751..63869767,-!p1@Smad6!0.33!4.39!Smad6;;chr18:55150248..55150308,-!p6@Zfp608!0.33!3.99!Zfp608;;chr16:4559721..4559747,-!p3@Tfap4!0.33!3.59!Tfap4;;
@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011434
 |is_obsolete=
+|library_id=CNhs10587
+|library_id_phase_based=2:CNhs10587
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;857
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;857
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E12.CNhs10587.857-27C9.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E12.CNhs10587.857-27C9.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E12.CNhs10587.857-27C9.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E12.CNhs10587.857-27C9.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E12.CNhs10587.857-27C9.mm9.nobarcode.rdna.fa.gz
 |name=whole body, embryo E12
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10587,LSID653,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.0893650698915935,0,0,0,0,0,0.047372616239112,0,0,0,0,0.494663537695176,0,0,0,0,0,0,0.222427981581372,0,0.0729127179624205,0,0,0,0,0,0,0,0,0,0,0,-0.216577985020223,0,0,0,0,0.0189169080960595,-0.136410007533406,0.092289995944834,-0.141801605977235,0.527978765274088,0.548776050608688,0.145825435924841,0,0,0,0,0,0,0,0,0,0,0,0.0798198883614002,0.145825435924841,0,0,0,-0.0428469550828748,0,-0.00329571383706642,0,0,0,-0.00212885112103935,-0.310650657339386,-0.012265606846242,0.0414487001893886,0,0,0.0935709832864151,0,0.145825435924841,0,0.064266014784873,-0.0628340768640038,0.135615352061721,-0.0788315948399074,0,0,0,0,0,0,-0.122469471105573,-0.124488549279456,-0.196890284268979,0,0,0,0,0

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FF:857-27C9: Difference between revisions

From FANTOM5_SSTAR

Revision as of 22:48, 10 August 2017

CNhs10587

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	Mozilla Cavendish skin modified by DaSch for the Web Community Wiki GitHub project page – Report a bug – Skin version: 2.6.0