FILTERS:
pvalue:0.1
Motif craMmus413102
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 craMmus413102
Discovery p-value 2.79E-03
Motif location chr7: 104,172,573-104,172,580 (-) (8 bp)
Search region location chr7: 104,170,893-104,173,346 (-) (2,454 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 13 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Macaca mulatta, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa
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.): aMEF-2(5.28E-05) ,    MEF-2A(9.30E-05) ,    aMEF-2(1.41E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
43 (MEF-2A__POU3F2)     123 (Cdc5__aMEF-2)     186 (Crx__MEF-2A)     265 (Chx10__MEF-2A)     399 (POU3F2__aMEF-2)     435 (HOXA5__MEF-2A)     577 (MEF-2A__OCA-B)     669 (Evi-1__MEF-2A)     694 (Crx__aMEF-2)     762 (AFP1__aMEF-2)     787 (CUTL1__aMEF-2)     805 (AFP1__MEF-2A)     817 (Nkx6-2__aMEF-2)     851 (POU2F1__aMEF-2)     869 (Evi-1__aMEF-2)     871 (MEF-2A__POU2F1)     890 (C-EBPalpha__aMEF-2)     939 (MEF-2A__Nkx6-2)     986 (MEF-2A__aMEF-2)     1055 (SRY__aMEF-2)     1151 (FOXJ2__MEF-2A)     1265 (C-EBPbeta__aMEF-2)     1324 (C-EBPbeta__MEF-2A)     1391 (OCA-B__aMEF-2)     1407 (CUTL1__MEF-2A)     1444 (Cdc5__MEF-2A)     1462 (MEF-2A__SRY)     1464 (HOXA5__aMEF-2)     1471 (Chx10__aMEF-2)     1504 (aMEF-2__aMEF-2)     1564 (FOXJ2__aMEF-2)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AkATATTT AAATATmT
Position frequency matrix
1 2 3 4 5 6 7 8
A 13 0 11 0 13 0 0 0
C 0 0 0 0 0 0 0 0
G 0 6 2 0 0 0 0 0
T 0 7 0 13 0 13 13 13
A k A T A T T T
1 2 3 4 5 6 7 8
A 13 13 13 0 13 0 7 0
C 0 0 0 0 0 2 6 0
G 0 0 0 0 0 0 0 0
T 0 0 0 13 0 11 0 13
A A A T A T m T

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
ENSMUSG00000060549 Target Mus musculus chr7:104,172,573-104,172,580 + AGATATTT – AAATATCT
ENSMUSG00000060549_CFAM Orthologue Canis familiaris chr21:34,596,237-34,596,244 – AGATATTT + AAATATCT
ENSMUSG00000060549_DNOV Orthologue Dasypus novemcinctus scaffold_61181:1,596-1,603 – ATGTATTT + AAATACAT
ENSMUSG00000060549_DRER Orthologue Danio rerio chr15:35,919,229-35,919,236 + ATATATTT – AAATATAT
ENSMUSG00000060549_ETEL Orthologue Echinops telfairi scaffold_293626:79,501-79,508 – ATGTATTT + AAATACAT
ENSMUSG00000060549_GGAL Orthologue Gallus gallus chr5:2,401,516-2,401,523 + AGATATTT – AAATATCT
ENSMUSG00000060549_HSAP Orthologue Homo sapiens chr11:7,775,340-7,775,347 – ATATATTT + AAATATAT
ENSMUSG00000060549_LAFR Orthologue Loxodonta africana scaffold_60874:5,400-5,407 – ATATATTT + AAATATAT
ENSMUSG00000060549_MMUL Orthologue Macaca mulatta SCAFFOLD105816:45,664-45,671 + ATATATTT – AAATATAT
ENSMUSG00000060549_PTRO Orthologue Pan troglodytes chr9:7,895,455-7,895,462 – ATATATTT + AAATATAT
ENSMUSG00000060549_RNOR Orthologue Rattus norvegicus chr1:165,821,713-165,821,720 + AGATATTT – AAATATCT
ENSMUSG00000060549_SARA Orthologue Sorex araneus ENSMUSG00000060549_SARA:379-386 – AGATATTT + AAATATCT
ENSMUSG00000060549_SSCR Orthologue Sus scrofa ENSMUSG00000060549_SSCR:583-590 – AGATATTT + AAATATCT

Questions or comments: cisred@bcgsc.ca