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FF:89-27D5

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Name:vagina, adult
Species:Mouse (Mus musculus)
Library ID:CNhs10502
Sample type:developmental
Genomic View: UCSC
MicroRNAs:Including candidate novel miRNAs(CAGE samples)
Excluding candidate novel miRNAs(CAGE samples)
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissuevagina
dev stageadult
sexfemale
ageNA
cell typeCELL MIXTURE - tissue sample
cell lineNA
companyNA
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typeNA
extraction protocol (Details)NA

Accession numbers
MethodSample accession id
CAGE  SAMD00005786
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10502 CAGE DRX009130 DRR010004
Accession ID Mm9

Library idBAMCTSS
CNhs10502 DRZ001429 DRZ002812
Accession ID Mm10

Library idBAMCTSS
CNhs10502 DRZ012779 DRZ014162
Download raw sequence, BAM & CTSS
Mm9
FastaBAMCTSS
downloaddownloaddonwload
Mm10
BAMCTSS
downloaddonwload


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

CNhs10502

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.0422
1001 0.141
1002 --0.0422
1003 0.148
1004 0.216
1005 0.0455
1006 --0.0101
1007 --0.0195
1008 0
1009 0.169
101 0.0595
1010 0
1011 --0.0459
1012 0
1013 0.0984
1014 --0.0874
1015 --0.147
1016 --0.0393
1017 0.553
1018 0.94
1019 0
102 0
1020 0
1021 0
1022 0.014
1023 0
1024 0.0761
1025 0.0549
1026 0
1027 --0.00502
1028 0.0844
1029 0.14
103 0.197
1030 0
1031 0.136
1032 0.0853
1033 0.00913
1034 0.0844
1035 0
1036 0.053
1037 0
1038 --0.0466
1039 --0.159
104 0
1040 0.137
1041 0.0844



Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family 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



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 this sample. Pearson's correlation between the number of TFBSs estimated by using the position-weight matrix for each promoter and its expression is expressed as Z-score by taking the ones based on random position-weight matrix, and the tail probability of the normal distribution corresponding to the Z-score is taken as the resulting P-value. Lower P-value indicates more (non-random) association of the motif to promoter expression
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs10502

Jaspar motif P-value
MA0002.2 0.0942
MA0003.1 0.428
MA0004.1 0.911
MA0006.1 0.0367
MA0007.1 0.941
MA0009.1 0.184
MA0014.1 0.511
MA0017.1 3.86391e-4
MA0018.2 0.277
MA0019.1 0.167
MA0024.1 5.23007e-4
MA0025.1 0.467
MA0027.1 0.351
MA0028.1 0.0517
MA0029.1 0.212
MA0030.1 0.558
MA0031.1 0.348
MA0035.2 4.4504e-6
MA0038.1 0.289
MA0039.2 9.5958e-4
MA0040.1 0.877
MA0041.1 0.0273
MA0042.1 0.031
MA0043.1 0.262
MA0046.1 7.44021e-7
MA0047.2 0.476
MA0048.1 0.994
MA0050.1 0.0526
MA0051.1 0.536
MA0052.1 0.545
MA0055.1 0.384
MA0057.1 0.0655
MA0058.1 0.579
MA0059.1 0.398
MA0060.1 6.37041e-8
MA0061.1 0.533
MA0062.2 0.043
MA0065.2 0.719
MA0066.1 0.929
MA0067.1 0.288
MA0068.1 0.566
MA0069.1 0.561
MA0070.1 0.612
MA0071.1 0.0885
MA0072.1 0.583
MA0073.1 0.922
MA0074.1 0.514
MA0076.1 0.0191
MA0077.1 0.21
MA0078.1 0.347
MA0079.2 0.0188
MA0080.2 0.0131
MA0081.1 0.359
MA0083.1 0.0321
MA0084.1 0.584
MA0087.1 0.744
MA0088.1 0.808
MA0090.1 0.121
MA0091.1 0.351
MA0092.1 0.279
MA0093.1 0.794
MA0099.2 1.34429e-32
MA0100.1 0.0932
MA0101.1 0.389
MA0102.2 0.132
MA0103.1 1.61034e-4
MA0104.2 0.0807
MA0105.1 0.705
MA0106.1 0.00533
MA0107.1 0.103
MA0108.2 1.0896e-9
MA0111.1 0.378
MA0112.2 0.0629
MA0113.1 0.382
MA0114.1 0.00126
MA0115.1 4.52519e-4
MA0116.1 0.672
MA0117.1 0.668
MA0119.1 0.644
MA0122.1 0.577
MA0124.1 0.366
MA0125.1 0.279
MA0131.1 0.278
MA0135.1 0.686
MA0136.1 0.042
MA0137.2 0.0982
MA0138.2 0.846
MA0139.1 0.78
MA0140.1 6.89958e-5
MA0141.1 0.00218
MA0142.1 0.348
MA0143.1 0.035
MA0144.1 0.0157
MA0145.1 0.00383
MA0146.1 0.441
MA0147.1 0.0734
MA0148.1 0.951
MA0149.1 0.268
MA0150.1 0.0132
MA0152.1 0.839
MA0153.1 2.29093e-7
MA0154.1 0.169
MA0155.1 0.679
MA0156.1 0.203
MA0157.1 0.0735
MA0159.1 0.983
MA0160.1 0.028
MA0162.1 0.849
MA0163.1 0.827
MA0164.1 0.776
MA0258.1 0.277
MA0259.1 0.145



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 in 169 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: CNhs10502

Novel motif P-value
1 0.778
10 0.667
100 0.364
101 0.778
102 0.263
103 0.408
104 0.235
105 0.23
106 6.44931e-4
107 0.0115
108 0.762
109 0.291
11 0.955
110 0.557
111 0.502
112 0.506
113 0.83
114 0.817
115 0.185
116 0.335
117 0.458
118 0.128
119 0.0135
12 0.514
120 0.838
121 0.267
122 0.237
123 0.568
124 0.712
125 0.553
126 0.268
127 0.585
128 0.00317
129 0.595
13 0.0461
130 0.496
131 0.26
132 0.722
133 0.275
134 0.831
135 0.555
136 0.123
137 0.14
138 0.0163
139 0.198
14 0.412
140 0.0484
141 0.483
142 0.839
143 0.804
144 0.659
145 0.247
146 0.157
147 0.186
148 0.492
149 0.272
15 0.703
150 0.349
151 0.403
152 0.00378
153 0.154
154 0.643
155 0.879
156 0.887
157 0.187
158 0.409
159 0.239
160 0.37
161 0.829
162 0.783
163 0.396
164 0.763
165 0.308
166 0.493
167 0.192
168 0.944
169 0.0432
17 0.0131
18 0.893
19 0.0655
2 0.164
20 0.531
21 0.00895
22 0.399
23 0.0723
24 0.0538
25 0.182
26 0.0405
27 0.987
28 0.543
29 0.924
3 0.641
30 0.061
31 0.965
32 0.846
33 0.922
34 0.937
35 0.167
36 0.179
37 0.159
38 0.786
39 0.375
4 0.79
40 0.374
41 0.348
42 0.437
43 0.262
44 0.316
45 0.12
46 0.22
47 0.868
48 0.937
49 0.372
5 0.827
50 0.518
51 0.59
52 0.101
53 0.174
54 0.376
55 0.82
56 0.553
57 0.702
58 0.481
59 0.196
6 0.18
60 0.126
61 0.258
62 0.786
63 0.298
64 0.582
65 0.676
66 0.575
67 0.698
68 0.373
69 0.893
7 0.769
70 0.0709
71 0.386
72 0.609
73 0.0122
74 0.83
75 0.566
76 0.108
77 0.0171
78 0.0632
79 0.833
8 0.717
80 0.0814
81 0.153
82 0.549
83 0.211
84 0.446
85 0.109
86 0.287
87 0.187
88 0.82
89 0.893
9 0.153
90 0.609
91 0.784
92 0.262
93 0.249
94 0.931
95 0.643
96 0.499
97 0.25
98 0.99
99 0.223



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: CNhs10502


FANTOM5 (FF) ontology


Direct parent terms


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)
0007023 (adult organism)
0000996 (vagina)
0003134 (female reproductive organ)
0000479 (tissue)
0005156 (reproductive structure)
0004119 (endoderm-derived structure)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000077 (mixed endoderm/mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003133 (reproductive organ)
0003975 (internal female genitalia)
0004175 (internal genitalia)
0010317 (germ layer / neural crest derived structure)
0003100 (female organism)
0000474 (female reproductive system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011438 (mouse vagina- adult 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

UBERON:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0006603 (presumptive mesoderm)
UBERON:0010316 (germ layer / neural crest)