Motif craMmus417188
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This page describes one atomic motif in this cisRED database.
An atomic motif is a result returned by cisRED's motif discovery process
operating on an input sequence set. An input sequence set consists of a
search region sequence on the target genome (shown in the genome browser
view below) and corresponding sequences from other species. A motif consists
of a set of conserved sequences ('hits'). It can be represented by a
consensus sequence, a position frequency matrix and a sequence logo.
| Motif overview
|
| Atomic motif id |
craMmus417188 |
| Discovery p-value |
2.79E-03 |
| Motif location |
chr2: 87,374,416-87,374,423 (+)
(8 bp)
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| Search region location |
chr2: 87,374,174-87,375,950 (+) (1,777 bp)
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| Assembly |
Mouse, Ensembl v38 (NCBI m35)
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| Found in |
14 species:
Mus musculus,
Canis familiaris,
Cavia porcellus,
Dasypus novemcinctus,
Danio rerio,
Gallus gallus,
Homo sapiens,
Loxodonta africana,
Monodelphis domestica,
Macaca mulatta,
Oryctolagus cuniculus,
Pan troglodytes,
Rattus norvegicus,
Spermophilus tridecemlineatus
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| Found with |
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| 'De Novo' motif group ID |
This motif was not submitted for clustering.
|
Similar to
(annotation p-value) |
There are
8 annotation(s)
with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (7 annot.):
aMEF-2(1.05E-05)
,
TEF(4.52E-05)
,
HNF-1alpha(1.47E-04)
,
HNF-1alpha(5.53E-04)
,
RSRFC4(5.75E-04)
...
ORegAnno: (1 annot.):
FoxA1(6.44E-04)
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Modules
(Co-occurring motif patterns) |
Annotation-based:
No 'de novo' modules exist in this database.
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Sequence Conservation
Sequence logo
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(+)motif |
(-)motif
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| Consensus sequence |
ATATATTT
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AAATATAT
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| Position frequency matrix
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|
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
| A |
14
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0
|
11
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0
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14
|
0
|
1
|
0
|
| C |
0
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0
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0
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0
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0
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0
|
0
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0
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| G |
0
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0
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0
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0
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0
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0
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0
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0
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| T |
0
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14
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3
|
14
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0
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14
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13
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14
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|
A
|
T
|
A
|
T
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A
|
T
|
T
|
T
|
|
|
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
| A |
14
|
13
|
14
|
0
|
14
|
3
|
14
|
0
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| C |
0
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0
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0
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0
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0
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0
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0
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0
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| G |
0
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0
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0
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0
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0
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0
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0
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0
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| T |
0
|
1
|
0
|
14
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0
|
11
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0
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14
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A
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A
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A
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T
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A
|
T
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A
|
T
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In the table below, bases highlighted on the Target sequence will link to a single nucleotide polymoprhism in NCBI's dbSNP.
| Site Sequence Stack |
| Ensembl gene ID |
Type |
Species |
Position |
Std |
(+)Sequence |
Std |
(-)Sequence |
| ENSMUSG00000061520 |
Target |
Mus musculus |
chr2:87,374,416-87,374,423 |
+
|
ATATATTT |
–
|
AAATATAT |
|
ENSMUSG00000061520_CFAM
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Orthologue |
Canis familiaris |
chr18:43,069,190-43,069,197 |
+
|
ATATATTT |
–
|
AAATATAT |
|
ENSMUSG00000061520_CPOR
|
Orthologue |
Cavia porcellus |
ENSMUSG00000061520_CPOR:408-415 |
+
|
ATATATTT |
–
|
AAATATAT |
|
ENSMUSG00000061520_DNOV
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Orthologue |
Dasypus novemcinctus |
scaffold_18954:4,735-4,742 |
+
|
ATATATTT |
–
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AAATATAT |
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ENSMUSG00000061520_DRER
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Orthologue |
Danio rerio |
chr21:14,234,292-14,234,299 |
– |
ATATATTT |
+ |
AAATATAT |
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ENSMUSG00000061520_GGAL
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Orthologue |
Gallus gallus |
chr5:69,648-69,655 |
– |
ATATATAT |
+ |
ATATATAT |
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ENSMUSG00000061520_HSAP
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Orthologue |
Homo sapiens |
chr11:55,439,398-55,439,405 |
– |
ATATATTT |
+ |
AAATATAT |
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ENSMUSG00000061520_LAFR
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Orthologue |
Loxodonta africana |
scaffold_13558:4,683-4,690 |
– |
ATTTATTT |
+ |
AAATAAAT |
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ENSMUSG00000061520_MDOM
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Orthologue |
Monodelphis domestica |
scaffold_33:17,366,514-17,366,521 |
– |
ATATATTT |
+ |
AAATATAT |
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ENSMUSG00000061520_MMUL
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Orthologue |
Macaca mulatta |
SCAFFOLD115116:156,488-156,495 |
+
|
ATATATTT |
–
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AAATATAT |
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ENSMUSG00000061520_OCUN
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Orthologue |
Oryctolagus cuniculus |
scaffold_170859:1,943-1,950 |
– |
ATTTATTT |
+ |
AAATAAAT |
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ENSMUSG00000061520_PTRO
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Orthologue |
Pan troglodytes |
9_random:27,082,218-27,082,225 |
– |
ATATATTT |
+ |
AAATATAT |
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ENSMUSG00000061520_RNOR
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Orthologue |
Rattus norvegicus |
chr3:71,099,054-71,099,061 |
+
|
ATATATTT |
–
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AAATATAT |
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ENSMUSG00000061520_STRI
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Orthologue |
Spermophilus tridecemlineatus |
ENSMUSG00000061520_STRI:87-94 |
+
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ATTTATTT |
–
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AAATAAAT |
