Motif craMmus417019
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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 |
craMmus417019 |
| Discovery p-value |
2.79E-03 |
| Motif location |
chr2: 87,374,412-87,374,421 (+)
(10 bp)
|
| Search region location |
chr2: 87,374,174-87,375,950 (+) (1,777 bp)
|
| Assembly |
Mouse, Ensembl v38 (NCBI m35)
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| Found in |
16 species:
Mus musculus,
Canis familiaris,
Cavia porcellus,
Dasypus novemcinctus,
Danio rerio,
Fugu rubripes,
Gallus gallus,
Homo sapiens,
Loxodonta africana,
Monodelphis domestica,
Macaca mulatta,
Ovis aries,
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: (8 annot.):
aMEF-2(1.05E-05)
,
HNF-1alpha(1.47E-04)
,
aMEF-2(3.89E-04)
,
HNF-1alpha(5.53E-04)
,
RSRFC4(5.75E-04)
...
ORegAnno: (0 annot.): none
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Modules
(Co-occurring motif patterns) |
Annotation-based:
No 'de novo' modules exist in this database.
|
Sequence Conservation
Sequence logo
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(+)motif |
(-)motif
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| Consensus sequence |
CnATrTATwT
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AsATAyATnG
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| Position frequency matrix
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|
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
9 |
10 |
| A |
5
|
7
|
16
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0
|
6
|
0
|
13
|
0
|
6
|
0
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| C |
11
|
5
|
0
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0
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0
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0
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0
|
5
|
2
|
0
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| G |
0
|
0
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0
|
0
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8
|
0
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0
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0
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0
|
0
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| T |
0
|
4
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0
|
16
|
2
|
16
|
3
|
11
|
8
|
16
|
|
C
|
n
|
A
|
T
|
r
|
T
|
A
|
T
|
w
|
T
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|
|
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
9 |
10 |
| A |
16
|
8
|
11
|
3
|
16
|
2
|
16
|
0
|
4
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0
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| C |
0
|
0
|
0
|
0
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0
|
8
|
0
|
0
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0
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0
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| G |
0
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2
|
5
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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
|
5
|
11
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| T |
0
|
6
|
0
|
13
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0
|
6
|
0
|
16
|
7
|
5
|
|
A
|
w
|
A
|
T
|
A
|
y
|
A
|
T
|
n
|
G
|
|
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 |
chr2:87,374,412-87,374,421 |
+
|
CTATATATAT |
–
|
ATATATATAG |
|
ENSMUSG00000061520_CFAM
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Orthologue |
Canis familiaris |
chr18:43,069,188-43,069,197 |
+
|
AAATATATTT |
–
|
AAATATATTT |
|
ENSMUSG00000061520_CPOR
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Orthologue |
Cavia porcellus |
ENSMUSG00000061520_CPOR:659-668 |
+
|
CCATGTATTT |
–
|
AAATACATGG |
|
ENSMUSG00000061520_DNOV
|
Orthologue |
Dasypus novemcinctus |
scaffold_18954:3,871-3,880 |
– |
CCATGTACAT |
+ |
ATGTACATGG |
|
ENSMUSG00000061520_DRER
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Orthologue |
Danio rerio |
chr21:14,234,023-14,234,032 |
+
|
AAATGTACAT |
–
|
ATGTACATTT |
|
ENSMUSG00000061520_FRUB
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Orthologue |
Fugu rubripes |
chrUn:198,144,863-198,144,872 |
+
|
ATATTTACTT |
–
|
AAGTAAATAT |
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ENSMUSG00000061520_GGAL
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Orthologue |
Gallus gallus |
chr5:69,574-69,583 |
– |
CCATGTACTT |
+ |
AAGTACATGG |
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ENSMUSG00000061520_HSAP
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Orthologue |
Homo sapiens |
chr11:55,438,453-55,438,462 |
– |
CAATGTATTT |
+ |
AAATACATTG |
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ENSMUSG00000061520_LAFR
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Orthologue |
Loxodonta africana |
scaffold_13558:5,351-5,360 |
– |
CAATTTTTAT |
+ |
ATAAAAATTG |
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ENSMUSG00000061520_MDOM
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Orthologue |
Monodelphis domestica |
scaffold_33:17,365,149-17,365,158 |
– |
CCATGTATTT |
+ |
AAATACATGG |
|
ENSMUSG00000061520_MMUL
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Orthologue |
Macaca mulatta |
SCAFFOLD115116:156,486-156,495 |
+
|
CTATATATTT |
–
|
AAATATATAG |
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ENSMUSG00000061520_OARI
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Orthologue |
Ovis aries |
ENSMUSG00000061520_OARI:199-208 |
+
|
CAATGTACCT |
–
|
AGGTACATTG |
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ENSMUSG00000061520_OCUN
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Orthologue |
Oryctolagus cuniculus |
scaffold_170859:2,328-2,337 |
– |
ATATATTTAT |
+ |
ATAAATATAT |
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ENSMUSG00000061520_PTRO
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Orthologue |
Pan troglodytes |
9_random:27,081,275-27,081,284 |
– |
CAATGTATTT |
+ |
AAATACATTG |
|
ENSMUSG00000061520_RNOR
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Orthologue |
Rattus norvegicus |
chr3:71,098,845-71,098,854 |
– |
ACATATATAT |
+ |
ATATATATGT |
|
ENSMUSG00000061520_STRI
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Orthologue |
Spermophilus tridecemlineatus |
ENSMUSG00000061520_STRI:140-149 |
+
|
CAATATTTCT |
–
|
AGAAATATTG |
