Motif craMmus405893
|
|
|
The contents of this page can be modified by changing your
filter settings.
Currently, this page only shows information about a motif if it:
+ has a discovery p-value <
0.1
Filters based on species and motif discovery algorithms are not applied to the contents of this page.
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 |
craMmus405893 |
| Discovery p-value |
2.79E-03 |
| Motif location |
chr10: 23,744,940-23,744,947 (-)
(8 bp)
|
| Search region location |
chr10: 23,744,209-23,746,249 (-) (2,041 bp)
|
| Assembly |
Mouse, Ensembl v38 (NCBI m35)
|
| Found in |
15 species:
Mus musculus,
Bos taurus,
Dasypus novemcinctus,
Danio rerio,
Echinops telfairi,
Felis catus,
Fugu rubripes,
Loxodonta africana,
Monodelphis domestica,
Macaca mulatta,
Oryctolagus cuniculus,
Procavia capensis,
Rattus norvegicus,
Sorex araneus,
Xenopus tropicalis
|
| Found with |
|
| 'De Novo' motif group ID |
This motif was not submitted for clustering.
|
Similar to
(annotation p-value) |
There are
10 annotation(s)
with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (8 annot.):
CUTL1(2.14E-05)
,
AIRE(6.60E-05)
,
Nkx3-1(1.72E-04)
,
Chx10(1.73E-04)
,
Lhx3a(1.80E-04)
...
ORegAnno: (2 annot.):
FoxA1(3.76E-04)
,
FoxA1(3.76E-04)
|
Modules
(Co-occurring motif patterns) |
Annotation-based:
No 'de novo' modules exist in this database.
|
Sequence Conservation
Sequence logo
|
(+)motif |
(-)motif
|
|
|
|
|
| Consensus sequence |
TTTAAsTA
|
TAwTTAAA
|
| Position frequency matrix
|
|
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
| A |
0
|
0
|
0
|
10
|
14
|
7
|
0
|
15
|
| C |
0
|
0
|
0
|
0
|
1
|
0
|
0
|
0
|
| G |
0
|
0
|
0
|
0
|
0
|
0
|
0
|
0
|
| T |
15
|
15
|
15
|
5
|
0
|
8
|
15
|
0
|
|
T
|
T
|
T
|
A
|
A
|
w
|
T
|
A
|
|
|
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
| A |
0
|
15
|
8
|
0
|
5
|
15
|
15
|
15
|
| C |
0
|
0
|
0
|
0
|
0
|
0
|
0
|
0
|
| G |
0
|
0
|
0
|
1
|
0
|
0
|
0
|
0
|
| T |
15
|
0
|
7
|
14
|
10
|
0
|
0
|
0
|
|
T
|
A
|
w
|
T
|
T
|
A
|
A
|
A
|
|
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 |
| ENSMUSG00000059340 |
Target |
Mus musculus |
chr10:23,744,940-23,744,947 |
+
|
TTTAATTA |
– |
TAATTAAA |
|
ENSMUSG00000059340_BTAU
|
Orthologue |
Bos taurus |
chr9:40,846,247-40,846,254 |
+
|
TTTAATTA |
– |
TAATTAAA |
|
ENSMUSG00000059340_DNOV
|
Orthologue |
Dasypus novemcinctus |
scaffold_238028:298-305 |
–
|
TTTTATTA |
+
|
TAATAAAA |
|
ENSMUSG00000059340_DRER
|
Orthologue |
Danio rerio |
chr20:52,764,037-52,764,044 |
–
|
TTTAAATA |
+
|
TATTTAAA |
|
ENSMUSG00000059340_ETEL
|
Orthologue |
Echinops telfairi |
scaffold_232273:1,477-1,484 |
–
|
TTTAAATA |
+
|
TATTTAAA |
|
ENSMUSG00000059340_FCAT
|
Orthologue |
Felis catus |
ENSMUSG00000059340_FCAT:507-514 |
–
|
TTTTATTA |
+
|
TAATAAAA |
|
ENSMUSG00000059340_FRUB
|
Orthologue |
Fugu rubripes |
chrUn:306,112,052-306,112,059 |
+
|
TTTAAATA |
– |
TATTTAAA |
|
ENSMUSG00000059340_LAFR
|
Orthologue |
Loxodonta africana |
scaffold_40821:2,731-2,738 |
–
|
TTTTATTA |
+
|
TAATAAAA |
|
ENSMUSG00000059340_MDOM
|
Orthologue |
Monodelphis domestica |
scaffold_0:78,800,305-78,800,312 |
+
|
TTTAATTA |
– |
TAATTAAA |
|
ENSMUSG00000059340_MMUL
|
Orthologue |
Macaca mulatta |
SCAFFOLD40010:90,110-90,117 |
+
|
TTTTAATA |
– |
TATTAAAA |
|
ENSMUSG00000059340_OCUN
|
Orthologue |
Oryctolagus cuniculus |
scaffold_116094:4,627-4,634 |
+
|
TTTAAATA |
– |
TATTTAAA |
|
ENSMUSG00000059340_PCAP
|
Orthologue |
Procavia capensis |
ENSMUSG00000059340_PCAP:1-8 |
–
|
TTTAATTA |
+
|
TAATTAAA |
|
ENSMUSG00000059340_RNOR
|
Orthologue |
Rattus norvegicus |
chr1:21,979,550-21,979,557 |
–
|
TTTAATTA |
+
|
TAATTAAA |
|
ENSMUSG00000059340_SARA
|
Orthologue |
Sorex araneus |
ENSMUSG00000059340_SARA:102-109 |
–
|
TTTTCATA |
+
|
TATGAAAA |
|
ENSMUSG00000059340_XTRO
|
Orthologue |
Xenopus tropicalis |
scaffold_481:48,181-48,188 |
–
|
TTTAAATA |
+
|
TATTTAAA |
