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FF:57-7G5

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Name:testis, adult
Species:Mouse (Mus musculus)
Library ID:CNhs10504
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
tissuetestis
dev stageadult
sexmale
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  SAMD00005243
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10504 CAGE DRX009101 DRR009975
Accession ID Mm9

Library idBAMCTSS
CNhs10504 DRZ001400 DRZ002783
Accession ID Mm10

Library idBAMCTSS
CNhs10504 DRZ012750 DRZ014133
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

CNhs10504

MCL coexpression id Coexpression dpi cluster scores median value
0 1.43
1 0
10 0
100 0
1000 0.343
1001 0.605
1002 --0.0941
1003 --0.102
1004 0
1005 --0.0389
1006 --0.143
1007 0.465
1008 0
1009 0.137
101 0.122
1010 0
1011 1.457
1012 0
1013 --0.217
1014 --0.0874
1015 0.795
1016 --0.351
1017 0
1018 0
1019 0
102 0
1020 0
1021 --0.0487
1022 --0.06
1023 0
1024 --0.113
1025 0
1026 1.392
1027 --0.048
1028 0
1029 --0.148
103 --0.0848
1030 0
1031 --0.953
1032 --0.655
1033 0.0305
1034 0
1035 0.328
1036 --0.493
1037 0
1038 --0.398
1039 0.0338
104 0
1040 --0.866
1041 0.194



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: CNhs10504

Jaspar motif P-value
MA0002.2 0.463
MA0003.1 0.937
MA0004.1 0.425
MA0006.1 0.164
MA0007.1 0.83
MA0009.1 0.395
MA0014.1 0.556
MA0017.1 0.426
MA0018.2 1.5801e-12
MA0019.1 0.09
MA0024.1 0.328
MA0025.1 0.456
MA0027.1 0.459
MA0028.1 5.69831e-4
MA0029.1 0.662
MA0030.1 0.93
MA0031.1 0.518
MA0035.2 0.0311
MA0038.1 0.646
MA0039.2 0.259
MA0040.1 0.346
MA0041.1 0.193
MA0042.1 0.625
MA0043.1 7.66892e-5
MA0046.1 2.25439e-7
MA0047.2 0.0352
MA0048.1 0.0627
MA0050.1 1.91099e-4
MA0051.1 0.417
MA0052.1 0.00238
MA0055.1 8.76501e-5
MA0057.1 0.505
MA0058.1 0.34
MA0059.1 0.0162
MA0060.1 1.72528e-5
MA0061.1 0.0223
MA0062.2 1.82512e-5
MA0065.2 0.11
MA0066.1 0.879
MA0067.1 0.271
MA0068.1 0.634
MA0069.1 0.431
MA0070.1 0.968
MA0071.1 0.548
MA0072.1 0.742
MA0073.1 0.984
MA0074.1 0.798
MA0076.1 1.07128e-4
MA0077.1 5.57037e-5
MA0078.1 4.3804e-11
MA0079.2 0.0799
MA0080.2 3.97467e-5
MA0081.1 0.175
MA0083.1 0.0699
MA0084.1 0.367
MA0087.1 0.0437
MA0088.1 0.028
MA0090.1 0.438
MA0091.1 0.615
MA0092.1 0.0905
MA0093.1 0.509
MA0099.2 0.254
MA0100.1 1.11681e-16
MA0101.1 0.325
MA0102.2 0.213
MA0103.1 0.696
MA0104.2 0.00218
MA0105.1 0.0142
MA0106.1 0.0622
MA0107.1 0.029
MA0108.2 0.00152
MA0111.1 0.505
MA0112.2 0.455
MA0113.1 0.337
MA0114.1 0.447
MA0115.1 0.147
MA0116.1 0.168
MA0117.1 0.65
MA0119.1 0.0866
MA0122.1 0.714
MA0124.1 0.946
MA0125.1 0.217
MA0131.1 0.0673
MA0135.1 0.498
MA0136.1 0.174
MA0137.2 0.365
MA0138.2 0.0464
MA0139.1 0.2
MA0140.1 9.21469e-4
MA0141.1 0.593
MA0142.1 0.68
MA0143.1 1.17957e-4
MA0144.1 0.363
MA0145.1 0.0128
MA0146.1 0.00353
MA0147.1 0.00213
MA0148.1 0.0217
MA0149.1 0.255
MA0150.1 0.666
MA0152.1 0.116
MA0153.1 0.00136
MA0154.1 0.0436
MA0155.1 0.0971
MA0156.1 0.648
MA0157.1 0.437
MA0159.1 0.215
MA0160.1 0.00104
MA0162.1 0.974
MA0163.1 0.0289
MA0164.1 0.397
MA0258.1 0.773
MA0259.1 0.0212



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: CNhs10504

Novel motif P-value
1 0.581
10 0.137
100 0.0907
101 1
102 0.194
103 0.702
104 0.735
105 0.196
106 7.53319e-4
107 6.34182e-4
108 0.466
109 0.233
11 0.382
110 0.38
111 0.0188
112 0.256
113 0.388
114 0.221
115 0.947
116 0.925
117 0.00224
118 0.177
119 0.644
12 0.905
120 0.834
121 0.0265
122 0.747
123 0.357
124 0.463
125 0.839
126 0.143
127 0.996
128 0.00307
129 0.327
13 0.267
130 0.589
131 0.249
132 0.536
133 0.847
134 0.806
135 0.033
136 0.00204
137 0.603
138 0.413
139 0.459
14 0.219
140 0.742
141 0.169
142 0.759
143 0.993
144 0.276
145 0.384
146 0.86
147 0.254
148 0.0582
149 0.0637
15 0.672
150 0.258
151 0.18
152 0.464
153 0.323
154 0.466
155 0.106
156 0.283
157 0.911
158 1.38217e-5
159 0.166
160 0.115
161 0.127
162 0.784
163 0.515
164 0.145
165 0.349
166 0.922
167 0.286
168 0.217
169 0.954
17 0.603
18 0.892
19 0.394
2 9.7532e-4
20 0.00393
21 0.423
22 0.899
23 0.359
24 0.158
25 0.325
26 0.995
27 0.0182
28 0.949
29 0.0546
3 0.864
30 0.234
31 0.33
32 0.677
33 0.256
34 0.806
35 0.51
36 0.0863
37 0.91
38 0.794
39 0.373
4 0.813
40 0.108
41 3.08112e-4
42 0.875
43 0.569
44 0.933
45 0.341
46 0.933
47 0.312
48 0.335
49 0.896
5 0.742
50 0.707
51 0.56
52 0.146
53 0.226
54 0.428
55 0.97
56 0.243
57 0.968
58 0.571
59 0.237
6 0.596
60 0.403
61 0.659
62 0.66
63 0.569
64 0.613
65 0.289
66 0.0556
67 0.653
68 0.495
69 0.317
7 0.72
70 0.465
71 0.917
72 0.302
73 0.523
74 0.697
75 0.248
76 0.0148
77 0.525
78 0.0154
79 0.818
8 0.0459
80 0.252
81 0.201
82 0.935
83 0.669
84 0.678
85 0.809
86 0.704
87 0.0231
88 0.745
89 0.486
9 0.611
90 0.59
91 0.266
92 0.559
93 0.175
94 0.755
95 0.0877
96 0.443
97 0.241
98 0.92
99 0.232



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: CNhs10504


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)
0000473 (testis)
0000991 (gonad)
0000479 (tissue)
0005156 (reproductive structure)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003135 (male reproductive organ)
0003133 (reproductive organ)
0002323 (body cavity)
0000464 (anatomical space)
0004458 (body cavity or lining)
0010317 (germ layer / neural crest derived structure)
0003101 (male organism)
0000079 (male reproductive system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011383 (mouse testis- 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:0009117 (indifferent gonad)
UBERON:0002532 (epiblast (generic))
UBERON:0006603 (presumptive mesoderm)
UBERON:0005564 (gonad primordium)
UBERON:0010316 (germ layer / neural crest)