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FF:976-16D8

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Name:intestine, embryo E15
Species:Mouse (Mus musculus)
Library ID:CNhs10602
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
tissueintestine
dev stage15 days embryo
sexmixture
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  SAMD00005725
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10602 CAGE DRX008992 DRR009866
Accession ID Mm9

Library idBAMCTSS
CNhs10602 DRZ001291 DRZ002674
Accession ID Mm10

Library idBAMCTSS
CNhs10602 DRZ012641 DRZ014024
Download raw sequence, BAM & CTSS
Mm9
FastaBAMCTSS
downloaddownloaddonwload
Mm10
BAMCTSS
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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

CNhs10602

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.0996
1001 --0.00926
1002 0.299
1003 --0.00275
1004 0
1005 0.042
1006 --0.0642
1007 0.0652
1008 0
1009 0.0534
101 0.133
1010 0.142
1011 0
1012 0
1013 --0.12
1014 0.241
1015 0.171
1016 0.167
1017 0
1018 0.0195
1019 0
102 0
1020 0
1021 0
1022 --0.0704
1023 0
1024 0
1025 0.676
1026 0.0188
1027 0.0526
1028 0
1029 0.132
103 0.142
1030 0
1031 0.416
1032 0.044
1033 0.0244
1034 0
1035 0
1036 0.125
1037 0
1038 0.035
1039 --0.114
104 0
1040 0.0951
1041 0



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: CNhs10602

Jaspar motif P-value
MA0002.2 9.49712e-4
MA0003.1 0.48
MA0004.1 0.938
MA0006.1 0.88
MA0007.1 0.474
MA0009.1 0.526
MA0014.1 0.532
MA0017.1 0.244
MA0018.2 0.481
MA0019.1 0.485
MA0024.1 2.0755e-7
MA0025.1 0.0314
MA0027.1 0.091
MA0028.1 0.726
MA0029.1 0.956
MA0030.1 0.936
MA0031.1 0.635
MA0035.2 0.0249
MA0038.1 0.00593
MA0039.2 0.197
MA0040.1 0.428
MA0041.1 0.461
MA0042.1 0.978
MA0043.1 0.679
MA0046.1 1.98927e-54
MA0047.2 0.149
MA0048.1 0.449
MA0050.1 1.52894e-4
MA0051.1 8.29912e-4
MA0052.1 0.013
MA0055.1 0.364
MA0057.1 0.547
MA0058.1 0.914
MA0059.1 0.274
MA0060.1 1.11012e-15
MA0061.1 0.272
MA0062.2 0.282
MA0065.2 0.161
MA0066.1 0.0453
MA0067.1 0.112
MA0068.1 0.946
MA0069.1 0.316
MA0070.1 0.716
MA0071.1 0.0431
MA0072.1 0.0762
MA0073.1 0.976
MA0074.1 0.681
MA0076.1 0.689
MA0077.1 0.152
MA0078.1 0.99
MA0079.2 0.175
MA0080.2 0.179
MA0081.1 0.116
MA0083.1 1.21617e-5
MA0084.1 0.873
MA0087.1 0.247
MA0088.1 0.975
MA0090.1 0.279
MA0091.1 0.737
MA0092.1 0.56
MA0093.1 0.917
MA0099.2 0.22
MA0100.1 0.146
MA0101.1 0.394
MA0102.2 0.939
MA0103.1 0.87
MA0104.2 0.711
MA0105.1 0.0376
MA0106.1 0.259
MA0107.1 0.289
MA0108.2 0.0235
MA0111.1 0.354
MA0112.2 0.00132
MA0113.1 0.711
MA0114.1 0.122
MA0115.1 0.133
MA0116.1 0.0572
MA0117.1 0.0259
MA0119.1 0.0549
MA0122.1 0.654
MA0124.1 0.644
MA0125.1 0.385
MA0131.1 0.178
MA0135.1 0.0261
MA0136.1 0.422
MA0137.2 0.496
MA0138.2 0.0829
MA0139.1 0.984
MA0140.1 0.261
MA0141.1 0.0161
MA0142.1 0.426
MA0143.1 0.893
MA0144.1 0.867
MA0145.1 0.394
MA0146.1 0.918
MA0147.1 0.444
MA0148.1 0.109
MA0149.1 0.0708
MA0150.1 0.00238
MA0152.1 0.904
MA0153.1 2.22914e-33
MA0154.1 0.0753
MA0155.1 0.268
MA0156.1 0.847
MA0157.1 0.419
MA0159.1 0.172
MA0160.1 0.0885
MA0162.1 0.894
MA0163.1 0.745
MA0164.1 0.815
MA0258.1 4.1904e-4
MA0259.1 0.717



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: CNhs10602

Novel motif P-value
1 0.0445
10 0.194
100 0.66
101 0.577
102 0.379
103 0.0525
104 0.849
105 0.665
106 0.357
107 0.919
108 0.987
109 0.143
11 0.116
110 0.238
111 0.0212
112 0.257
113 0.485
114 5.87304e-4
115 0.207
116 0.766
117 0.084
118 0.514
119 0.0996
12 0.502
120 0.996
121 0.797
122 0.817
123 0.28
124 0.274
125 0.207
126 0.504
127 0.388
128 0.321
129 0.207
13 0.946
130 0.319
131 0.774
132 0.707
133 0.472
134 0.901
135 0.81
136 0.73
137 0.781
138 0.061
139 0.108
14 0.383
140 0.0196
141 0.545
142 0.146
143 0.0383
144 0.323
145 0.909
146 0.679
147 0.401
148 0.759
149 0.666
15 0.052
150 0.832
151 0.0663
152 0.571
153 0.12
154 0.31
155 0.348
156 5.86971e-4
157 0.458
158 0.34
159 0.203
160 0.398
161 0.917
162 0.452
163 0.291
164 0.15
165 0.309
166 0.207
167 0.341
168 0.434
169 0.187
17 0.209
18 0.115
19 0.939
2 0.619
20 0.344
21 0.542
22 0.582
23 0.121
24 0.435
25 0.281
26 0.778
27 0.677
28 0.117
29 0.423
3 0.121
30 0.572
31 0.314
32 0.177
33 0.685
34 0.568
35 0.0613
36 0.176
37 0.0571
38 0.527
39 0.867
4 0.883
40 0.891
41 0.197
42 0.323
43 0.121
44 0.114
45 0.606
46 0.392
47 0.237
48 0.215
49 0.0617
5 0.114
50 0.597
51 0.743
52 0.371
53 0.583
54 0.621
55 0.395
56 0.5
57 0.0957
58 0.252
59 0.211
6 0.788
60 0.712
61 0.962
62 0.0157
63 0.168
64 0.525
65 0.268
66 0.725
67 0.143
68 0.289
69 0.111
7 0.693
70 9.77315e-4
71 0.227
72 0.658
73 0.0711
74 0.958
75 0.0425
76 0.303
77 0.429
78 0.343
79 0.364
8 0.0378
80 0.247
81 0.212
82 0.018
83 0.0978
84 0.974
85 0.00643
86 0.793
87 0.948
88 0.538
89 0.427
9 0.936
90 0.0126
91 0.0684
92 0.148
93 0.566
94 0.0408
95 0.12
96 0.0873
97 0.826
98 0.161
99 0.483



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: CNhs10602


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)
0000922 (embryo)
0000160 (intestine)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0005409 (gastrointestinal system)

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)
0000298 (mouse embryonic day 15 sample)
0011441 (mouse intestine- embryo E15 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:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)