FILTERS:
pvalue:0.1
Motif craMmus274919
More information about this gene at Ensembl.org Go to UCSC
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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.

Page Contents

Overview
Sequence Conservation
Motif overview
Atomic motif id craMmus274919
Discovery p-value 4.04E-04
Motif location chr9: 51,307,544-51,307,553 (-) (10 bp)
Search region location chr9: 51,307,300-51,309,206 (-) (1,907 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 24 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Erinaceus europaeus, Echinops telfairi, Felis catus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Spermophilus tridecemlineatus, Tupaia belangeri
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (3 annot.): POU2F1(7.79E-05) ,    AFP1(3.32E-04) ,    COMP1(7.21E-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 TTAAATGCAA TTGCATTTAA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 0 0 23 24 24 0 1 0 24 24
C 0 0 0 0 0 0 0 24 0 0
G 0 0 0 0 0 0 23 0 0 0
T 24 24 1 0 0 24 0 0 0 0
T T A A A T G C A A
1 2 3 4 5 6 7 8 9 10
A 0 0 0 0 24 0 0 1 24 24
C 0 0 0 23 0 0 0 0 0 0
G 0 0 24 0 0 0 0 0 0 0
T 24 24 0 1 0 24 24 23 0 0
T T G C A T T T 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
ENSMUSG00000036027 Target Mus musculus chr9:51,307,544-51,307,553 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_BTAU Orthologue Bos taurus chr7:38,388,116-38,388,125 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_CFAM Orthologue Canis familiaris chr5:24,794,169-24,794,178 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000036027_CHOF:128-137 – TTTAATACAA + TTGTATTAAA
ENSMUSG00000036027_CJAC Orthologue Callithrix jacchus ENSMUSG00000036027_CJAC:465-474 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_CPOR Orthologue Cavia porcellus ENSMUSG00000036027_CPOR:248-257 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_DNOV Orthologue Dasypus novemcinctus scaffold_62481:617-626 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_EEUR Orthologue Erinaceus europaeus ENSMUSG00000036027_EEUR:351-360 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_ETEL Orthologue Echinops telfairi scaffold_292743:11,290-11,299 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_FCAT Orthologue Felis catus ENSMUSG00000036027_FCAT:178-187 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_HSAP Orthologue Homo sapiens chr11:110,621,608-110,621,617 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_LAFR Orthologue Loxodonta africana scaffold_211914:787-796 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_MDOM Orthologue Monodelphis domestica scaffold_2:130,868,708-130,868,717 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_MLUC Orthologue Myotis lucifugus ENSMUSG00000036027_MLUC:434-443 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_MMUL Orthologue Macaca mulatta SCAFFOLD35384:91,705-91,714 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_OCUN Orthologue Oryctolagus cuniculus scaffold_146172:4,097-4,106 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_OGAR Orthologue Otolemur garnettii ENSMUSG00000036027_OGAR:361-370 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_PPYG Orthologue Pongo pygmaeus ENSMUSG00000036027_PPYG:307-316 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_PTRO Orthologue Pan troglodytes 9_random:2,121,353-2,121,362 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_RNOR Orthologue Rattus norvegicus chr8:54,681,153-54,681,162 + TTAAATGCAA – TTGCATTTAA
ENSMUSG00000036027_SARA Orthologue Sorex araneus ENSMUSG00000036027_SARA:260-269 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_SSCR Orthologue Sus scrofa ENSMUSG00000036027_SSCR:588-597 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000036027_STRI:382-391 – TTAAATGCAA + TTGCATTTAA
ENSMUSG00000036027_TBEL Orthologue Tupaia belangeri ENSMUSG00000036027_TBEL:432-441 – TTAAATGCAA + TTGCATTTAA

Questions or comments: cisred@bcgsc.ca