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Name:vesicular gland, adult
Species:Mouse (Mus musculus)
Library ID:CNhs10491
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
tissuevesicular gland
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  SAMD00005950
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10491 CAGE DRX009131 DRR010005
Accession ID Mm9

Library idBAMCTSS
CNhs10491 DRZ001430 DRZ002813
Accession ID Mm10

Library idBAMCTSS
CNhs10491 DRZ012780 DRZ014163
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

CNhs10491

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.239
1001 0.0998
1002 --0.0941
1003 0.077
1004 0
1005 --0.0389
1006 --0.143
1007 0.0202
1008 0
1009 --0.0723
101 --0.0628
1010 0
1011 0
1012 0
1013 0.732
1014 --0.0874
1015 --0.235
1016 --0.289
1017 0
1018 0.0102
1019 0
102 0
1020 0
1021 0
1022 0.423
1023 0
1024 --0.0899
1025 0
1026 0
1027 0
1028 0
1029 5.646328e-4
103 --0.0736
1030 0
1031 --0.243
1032 0.211
1033 0
1034 0.187
1035 0
1036 --0.22
1037 1.257
1038 --0.0104
1039 --0.0328
104 0
1040 0.0547
1041 0.7



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: CNhs10491

Jaspar motif P-value
MA0002.2 0.187
MA0003.1 0.37
MA0004.1 0.296
MA0006.1 0.329
MA0007.1 3.78033e-4
MA0009.1 0.852
MA0014.1 0.315
MA0017.1 0.647
MA0018.2 0.00301
MA0019.1 0.691
MA0024.1 8.73806e-9
MA0025.1 0.105
MA0027.1 0.88
MA0028.1 0.503
MA0029.1 0.359
MA0030.1 0.983
MA0031.1 0.119
MA0035.2 0.33
MA0038.1 0.0271
MA0039.2 0.431
MA0040.1 0.957
MA0041.1 0.237
MA0042.1 0.473
MA0043.1 0.124
MA0046.1 0.0332
MA0047.2 0.00971
MA0048.1 0.891
MA0050.1 6.57953e-4
MA0051.1 0.00474
MA0052.1 0.0188
MA0055.1 0.943
MA0057.1 0.62
MA0058.1 0.265
MA0059.1 0.619
MA0060.1 7.67211e-7
MA0061.1 0.548
MA0062.2 0.906
MA0065.2 0.733
MA0066.1 0.794
MA0067.1 0.227
MA0068.1 0.617
MA0069.1 0.559
MA0070.1 0.75
MA0071.1 0.145
MA0072.1 0.581
MA0073.1 0.988
MA0074.1 0.254
MA0076.1 0.136
MA0077.1 0.0372
MA0078.1 0.172
MA0079.2 0.687
MA0080.2 0.0425
MA0081.1 0.282
MA0083.1 0.474
MA0084.1 0.806
MA0087.1 0.815
MA0088.1 0.827
MA0090.1 0.977
MA0091.1 0.139
MA0092.1 0.333
MA0093.1 0.367
MA0099.2 0.245
MA0100.1 0.577
MA0101.1 0.582
MA0102.2 0.054
MA0103.1 8.95768e-5
MA0104.2 0.894
MA0105.1 0.457
MA0106.1 0.316
MA0107.1 0.67
MA0108.2 0.0203
MA0111.1 0.451
MA0112.2 3.23947e-4
MA0113.1 0.535
MA0114.1 0.29
MA0115.1 0.48
MA0116.1 0.977
MA0117.1 0.174
MA0119.1 0.3
MA0122.1 0.749
MA0124.1 0.103
MA0125.1 0.257
MA0131.1 0.371
MA0135.1 0.475
MA0136.1 0.0783
MA0137.2 0.0157
MA0138.2 0.701
MA0139.1 0.0485
MA0140.1 0.787
MA0141.1 0.802
MA0142.1 0.913
MA0143.1 0.165
MA0144.1 1.36505e-4
MA0145.1 0.0355
MA0146.1 0.278
MA0147.1 0.819
MA0148.1 0.0429
MA0149.1 0.581
MA0150.1 0.14
MA0152.1 0.597
MA0153.1 0.0146
MA0154.1 0.48
MA0155.1 0.426
MA0156.1 0.314
MA0157.1 0.0812
MA0159.1 0.286
MA0160.1 0.372
MA0162.1 0.679
MA0163.1 0.154
MA0164.1 0.261
MA0258.1 0.0663
MA0259.1 0.927



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: CNhs10491

Novel motif P-value
1 0.0695
10 0.191
100 0.735
101 0.458
102 0.413
103 0.0605
104 0.924
105 0.217
106 0.0116
107 0.466
108 0.284
109 0.415
11 0.0897
110 0.329
111 0.00664
112 0.0498
113 0.402
114 0.525
115 0.134
116 0.368
117 0.501
118 0.717
119 0.0224
12 0.269
120 0.785
121 0.533
122 0.792
123 0.926
124 0.918
125 0.322
126 0.73
127 0.792
128 0.0315
129 0.227
13 0.0187
130 0.0313
131 0.691
132 0.351
133 0.545
134 0.763
135 0.517
136 0.66
137 0.649
138 0.233
139 0.415
14 0.988
140 0.0505
141 0.712
142 0.634
143 0.527
144 0.0268
145 0.0266
146 0.264
147 3.39985e-8
148 0.34
149 0.752
15 0.391
150 0.103
151 0.441
152 0.0528
153 0.433
154 0.149
155 0.55
156 0.101
157 0.883
158 0.731
159 0.921
160 0.703
161 0.171
162 0.411
163 0.409
164 0.0294
165 0.16
166 0.93
167 0.229
168 0.419
169 0.0541
17 0.0102
18 0.25
19 0.0108
2 0.147
20 0.886
21 0.466
22 0.155
23 0.0751
24 0.0869
25 0.429
26 0.0089
27 0.294
28 0.721
29 0.167
3 0.145
30 0.944
31 0.268
32 0.465
33 0.367
34 0.113
35 0.275
36 0.42
37 0.0797
38 0.253
39 0.0182
4 0.857
40 0.452
41 0.742
42 0.323
43 0.274
44 0.797
45 0.868
46 0.0654
47 0.269
48 0.199
49 0.192
5 0.227
50 0.356
51 0.651
52 0.196
53 0.554
54 0.662
55 0.374
56 0.84
57 0.327
58 0.224
59 0.545
6 0.18
60 0.0304
61 0.635
62 0.313
63 0.0805
64 0.36
65 0.0666
66 0.267
67 0.726
68 0.652
69 4.4459e-13
7 0.352
70 0.00568
71 0.0716
72 0.489
73 0.0158
74 0.0054
75 0.227
76 0.943
77 0.297
78 0.194
79 0.505
8 0.384
80 0.429
81 0.827
82 0.0322
83 0.0347
84 0.128
85 0.0435
86 0.146
87 0.889
88 0.622
89 0.304
9 0.57
90 0.399
91 0.188
92 0.214
93 0.143
94 0.961
95 0.911
96 0.331
97 0.0459
98 0.358
99 0.997



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: CNhs10491


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)
0000998 (seminal vesicle)
0000991 (gonad)
0007194 (vesicular gland)
0000479 (tissue)
0000058 (duct)
0005156 (reproductive structure)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004111 (anatomical conduit)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0002553 (anatomical cavity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003135 (male reproductive organ)
0003133 (reproductive organ)
0006868 (seminal fluid secreting gland)
0005904 (duct of male reproductive system)
0002323 (body cavity)
0000464 (anatomical space)
0004458 (body cavity or lining)
0002530 (gland)
0010147 (male accessory sex gland)
0004175 (internal genitalia)
0010317 (germ layer / neural crest derived structure)
0003937 (sex gland)
0005399 (male reproductive gland)
0003101 (male organism)
0000079 (male reproductive system)
0006947 (male genital duct)
0004054 (internal male genitalia)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011380 (mouse vesicular gland- 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:0006603 (presumptive mesoderm)
UBERON:0010316 (germ layer / neural crest)