FILTERS:
pvalue:0.1
Motif craMmus202637
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 craMmus202637
Discovery p-value 2.79E-03
Motif location chr16: 58,827,476-58,827,485 (-) (10 bp)
Search region location chr16: 58,825,890-58,827,699 (-) (1,810 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 14 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, 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 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): HOXA5(3.15E-04) ,    COMP1(3.27E-04) ,    POU1F1(5.16E-04) ,    IRF-7A(6.57E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
15 (COMP1__HNF-1alpha)     48 (COMP1__Nkx2-1)     145 (COMP1__POU3F2)     204 (HOXA5__HOXA5)     216 (COMP1__aMEF-2)     280 (COMP1__RSRFC4)     339 (HOXA5__S8)     361 (HOXA5__POU3F2)     434 (COMP1__POU2F1)     435 (HOXA5__MEF-2A)     438 (HOXA5__POU2F1)     465 (HOXA5__RSRFC4)     477 (HOXA5__POU1F1)     511 (COMP1__HNF-3)     514 (AIRE__HOXA5)     556 (HMG_I__HOXA5)     584 (COMP1__COMP1)     606 (COMP1__POU1F1)     624 (COMP1__Nkx6-2)     654 (COMP1__HOXA5)     674 (COMP1__MEF-2A)     691 (HOXA5__Nkx3-1)     725 (HOXA5__SRY)     781 (COMP1__Nkx3-1)     875 (HOXA5__Nkx6-2)     1062 (HNF-1alpha__HOXA5)     1071 (COMP1__S8)     1238 (HNF-3__HOXA5)     1246 (AIRE__COMP1)     1310 (COMP1__HMG_I)     1339 (FOXD3__HOXA5)     1464 (HOXA5__aMEF-2)     1556 (COMP1__SRY)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence nTTAsTTTTm kAAAAwTAAn
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 5 0 1 14 8 0 0 0 0 6
C 3 0 0 0 0 0 0 0 0 5
G 3 0 0 0 0 0 0 0 0 2
T 3 14 13 0 6 14 14 14 14 1
n T T A w T T T T m
1 2 3 4 5 6 7 8 9 10
A 1 14 14 14 14 6 0 13 14 3
C 2 0 0 0 0 0 0 0 0 3
G 5 0 0 0 0 0 0 0 0 3
T 6 0 0 0 0 8 14 1 0 5
k A A A A w T A A n

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
ENSMUSG00000044029 Target Mus musculus chr16:58,827,476-58,827,485 + ATTAATTTTC – GAAAATTAAT
ENSMUSG00000044029_BTAU Orthologue Bos taurus chr1:22,332,754-22,332,763 – ATTAATTTTG + CAAAATTAAT
ENSMUSG00000044029_CFAM Orthologue Canis familiaris chr33:8,242,448-8,242,457 – ATTAATTTTG + CAAAATTAAT
ENSMUSG00000044029_DNOV Orthologue Dasypus novemcinctus scaffold_32553:36,884-36,893 – CTTATTTTTA + TAAAAATAAG
ENSMUSG00000044029_DRER Orthologue Danio rerio chr21:38,819,483-38,819,492 + TTTATTTTTC – GAAAAATAAA
ENSMUSG00000044029_HSAP Orthologue Homo sapiens chr3:99,554,312-99,554,321 + GTTAATTTTA – TAAAATTAAC
ENSMUSG00000044029_LAFR Orthologue Loxodonta africana scaffold_21417:11,524-11,533 – ATTAATTTTA + TAAAATTAAT
ENSMUSG00000044029_MDOM Orthologue Monodelphis domestica scaffold_25:19,207,588-19,207,597 – CTTAATTTTC + GAAAATTAAG
ENSMUSG00000044029_MMUL Orthologue Macaca mulatta SCAFFOLD6266:18,698-18,707 + TTTATTTTTT – AAAAAATAAA
ENSMUSG00000044029_OCUN Orthologue Oryctolagus cuniculus scaffold_101312:1,128-1,137 – TTTAATTTTC + GAAAATTAAA
ENSMUSG00000044029_PTRO Orthologue Pan troglodytes chr2:100,738,298-100,738,307 + GTTAATTTTA – TAAAATTAAC
ENSMUSG00000044029_RNOR Orthologue Rattus norvegicus chr11:42,474,701-42,474,710 + ATTATTTTTC – GAAAAATAAT
ENSMUSG00000044029_SARA Orthologue Sorex araneus ENSMUSG00000044029_SARA:601-610 + CTAATTTTTA – TAAAAATTAG
ENSMUSG00000044029_XTRO Orthologue Xenopus tropicalis scaffold_504:675,022-675,031 + GTTATTTTTA – TAAAAATAAC

Questions or comments: cisred@bcgsc.ca