Motif craMmus297000
|
|
|
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 |
craMmus297000 |
| Discovery p-value |
2.79E-03 |
| Motif location |
chr13: 57,449,649-57,449,654 (-)
(6 bp)
|
| Search region location |
chr13: 57,449,337-57,452,126 (-) (2,790 bp)
|
| Assembly |
Mouse, Ensembl v38 (NCBI m35)
|
| Found in |
22 species:
Mus musculus,
Canis familiaris,
Choloepus hoffmanni,
Cavia porcellus,
Dasypus novemcinctus,
Equus caballus,
Erinaceus europaeus,
Echinops telfairi,
Fugu rubripes,
Gallus gallus,
Monodelphis domestica,
Myotis lucifugus,
Macaca mulatta,
Oryctolagus cuniculus,
Otolemur garnettii,
Procavia capensis,
Pongo pygmaeus,
Rattus norvegicus,
Sus scrofa,
Spermophilus tridecemlineatus,
Tupaia belangeri,
Tetraodon nigroviridis
|
| Found with |
|
| '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.):
Nkx6-2(5.25E-05)
,
HNF-1alpha(1.30E-04)
,
Chx10(2.47E-04)
,
Lhx3a(7.65E-04)
,
Nkx3-1(8.52E-04)
...
ORegAnno: (0 annot.): none
|
Modules
(Co-occurring motif patterns) |
Annotation-based:
No 'de novo' modules exist in this database.
|
Sequence Conservation
Sequence logo
|
(+)motif |
(-)motif
|
|
|
|
|
| Consensus sequence |
TrATTA
|
TAATyA
|
| Position frequency matrix
|
|
1 |
2 |
3 |
4 |
5 |
6 |
| A |
0
|
14
|
22
|
0
|
0
|
22
|
| C |
0
|
0
|
0
|
0
|
0
|
0
|
| G |
0
|
8
|
0
|
0
|
0
|
0
|
| T |
22
|
0
|
0
|
22
|
22
|
0
|
|
T
|
n
|
A
|
T
|
T
|
A
|
|
|
1 |
2 |
3 |
4 |
5 |
6 |
| A |
0
|
22
|
22
|
0
|
0
|
22
|
| C |
0
|
0
|
0
|
0
|
8
|
0
|
| G |
0
|
0
|
0
|
0
|
0
|
0
|
| T |
22
|
0
|
0
|
22
|
14
|
0
|
|
T
|
A
|
A
|
T
|
n
|
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 |
| ENSMUSG00000060176 |
Target |
Mus musculus |
chr13:57,449,649-57,449,654 |
+
|
TAATTA |
– |
TAATTA |
|
ENSMUSG00000060176_CFAM
|
Orthologue |
Canis familiaris |
chr1:78,614,494-78,614,499 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_CHOF
|
Orthologue |
Choloepus hoffmanni |
ENSMUSG00000060176_CHOF:199-204 |
–
|
TGATTA |
+
|
TAATCA |
|
ENSMUSG00000060176_CPOR
|
Orthologue |
Cavia porcellus |
ENSMUSG00000060176_CPOR:324-329 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_DNOV
|
Orthologue |
Dasypus novemcinctus |
scaffold_152038:788-793 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_ECAB
|
Orthologue |
Equus caballus |
ENSMUSG00000060176_ECAB:234-239 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_EEUR
|
Orthologue |
Erinaceus europaeus |
ENSMUSG00000060176_EEUR:222-227 |
–
|
TGATTA |
+
|
TAATCA |
|
ENSMUSG00000060176_ETEL
|
Orthologue |
Echinops telfairi |
scaffold_270551:2,665-2,670 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_FRUB
|
Orthologue |
Fugu rubripes |
chrUn:171,396,684-171,396,689 |
+
|
TAATTA |
– |
TAATTA |
|
ENSMUSG00000060176_GGAL
|
Orthologue |
Gallus gallus |
Z_random:12,707,127-12,707,132 |
+
|
TAATTA |
– |
TAATTA |
|
ENSMUSG00000060176_MDOM
|
Orthologue |
Monodelphis domestica |
scaffold_17:50,959,068-50,959,073 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_MLUC
|
Orthologue |
Myotis lucifugus |
ENSMUSG00000060176_MLUC:192-197 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_MMUL
|
Orthologue |
Macaca mulatta |
SCAFFOLD70912:23,112-23,117 |
+
|
TAATTA |
– |
TAATTA |
|
ENSMUSG00000060176_OCUN
|
Orthologue |
Oryctolagus cuniculus |
scaffold_150197:330-335 |
–
|
TGATTA |
+
|
TAATCA |
|
ENSMUSG00000060176_OGAR
|
Orthologue |
Otolemur garnettii |
ENSMUSG00000060176_OGAR:329-334 |
–
|
TGATTA |
+
|
TAATCA |
|
ENSMUSG00000060176_PCAP
|
Orthologue |
Procavia capensis |
ENSMUSG00000060176_PCAP:573-578 |
–
|
TGATTA |
+
|
TAATCA |
|
ENSMUSG00000060176_PPYG
|
Orthologue |
Pongo pygmaeus |
ENSMUSG00000060176_PPYG:347-352 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_RNOR
|
Orthologue |
Rattus norvegicus |
chr17:12,235,139-12,235,144 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_SSCR
|
Orthologue |
Sus scrofa |
ENSMUSG00000060176_SSCR:577-582 |
–
|
TGATTA |
+
|
TAATCA |
|
ENSMUSG00000060176_STRI
|
Orthologue |
Spermophilus tridecemlineatus |
ENSMUSG00000060176_STRI:559-564 |
–
|
TGATTA |
+
|
TAATCA |
|
ENSMUSG00000060176_TBEL
|
Orthologue |
Tupaia belangeri |
ENSMUSG00000060176_TBEL:241-246 |
–
|
TAATTA |
+
|
TAATTA |
|
ENSMUSG00000060176_TNIG
|
Orthologue |
Tetraodon nigroviridis |
chr12:7,660,281-7,660,286 |
–
|
TGATTA |
+
|
TAATCA |
