FILTERS:
pvalue:0.1
Motif craMmus427593
More information about this gene at Ensembl.org Go to UCSC
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+ has a discovery p-value < 0.1
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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 craMmus427593
Discovery p-value 3.41E-02
Motif location chr9: 110,687,463-110,687,476 (-) (14 bp)
Search region location chr9: 110,687,216-110,689,371 (-) (2,156 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 12 species: Mus musculus, Bos taurus, Canis familiaris, Callithrix jacchus, Dasypus novemcinctus, Echinops telfairi, Felis catus, Homo sapiens, Macaca mulatta, Otolemur garnettii, Pan troglodytes, Rattus norvegicus
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): COUP(1.65E-06) ,    PPAR-alpha(5.15E-05) ,    Pitx2(2.54E-04) ,    LUN-1(4.86E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 No annotation-based modules contain this motif.
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence CCCArGGACAAAGG CCTTTGTCCyTGGG
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12 13 14
A 1 1 0 11 4 0 0 11 0 12 10 12 0 0
C 8 8 10 1 0 0 0 0 11 0 0 0 0 1
G 3 0 1 0 7 12 12 0 1 0 0 0 12 10
T 0 3 1 0 1 0 0 1 0 0 2 0 0 1
C C C A r G G A C A A A G G
1 2 3 4 5 6 7 8 9 10 11 12 13 14
A 1 0 0 2 0 0 1 0 0 1 0 1 3 0
C 10 12 0 0 0 1 0 12 12 7 0 1 0 3
G 1 0 0 0 0 11 0 0 0 0 1 10 8 8
T 0 0 12 10 12 0 11 0 0 4 11 0 1 1
C C T T T G T C C y T G G 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
ENSMUSG00000066319 Target Mus musculus chr9:110,687,463-110,687,476 + CCCAGGGACAAAGG – CCTTTGTCCCTGGG
ENSMUSG00000066319_BTAU Orthologue Bos taurus chr22:42,676,635-42,676,648 – CTCAGGGACAAAGG + CCTTTGTCCCTGAG
ENSMUSG00000066319_CFAM Orthologue Canis familiaris chr20:45,201,609-45,201,622 + CTCAAGGACAAAGG – CCTTTGTCCTTGAG
ENSMUSG00000066319_CJAC Orthologue Callithrix jacchus ENSMUSG00000066319_CJAC:216-229 – CCCAGGGACAAAGG + CCTTTGTCCCTGGG
ENSMUSG00000066319_DNOV Orthologue Dasypus novemcinctus scaffold_57295:8,984-8,997 – CCTCAGGACAAAGT + ACTTTGTCCTGAGG
ENSMUSG00000066319_ETEL Orthologue Echinops telfairi scaffold_290828:42,478-42,491 – GACATGGAGAAAGC + GCTTTCTCCATGTC
ENSMUSG00000066319_FCAT Orthologue Felis catus ENSMUSG00000066319_FCAT:159-172 – CTCAAGGTCAAAGG + CCTTTGACCTTGAG
ENSMUSG00000066319_HSAP Orthologue Homo sapiens chr3:46,513,692-46,513,705 + GCCAGGGACATAGG – CCTATGTCCCTGGC
ENSMUSG00000066319_MMUL Orthologue Macaca mulatta SCAFFOLD110298:400-413 – CCCAGGGACAAAGG + CCTTTGTCCCTGGG
ENSMUSG00000066319_OGAR Orthologue Otolemur garnettii ENSMUSG00000066319_OGAR:66-79 – CCCAAGGACAAAGG + CCTTTGTCCTTGGG
ENSMUSG00000066319_PTRO Orthologue Pan troglodytes chr2:47,861,606-47,861,619 + GCCAGGGACATAGG – CCTATGTCCCTGGC
ENSMUSG00000066319_RNOR Orthologue Rattus norvegicus chr8:115,411,617-115,411,630 + ACGAGGGACAAAGG – CCTTTGTCCCTCGT

Questions or comments: cisred@bcgsc.ca