FILTERS:
pvalue:0.1
Motif craMmus407015
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 craMmus407015
Discovery p-value 2.79E-03
Motif location chr10: 129,385,351-129,385,360 (-) (10 bp)
Search region location chr10: 129,385,123-129,387,303 (-) (2,181 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 23 species: Mus musculus, Bos taurus, Canis familiaris, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Tupaia belangeri, Tetraodon nigroviridis, 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.): HNF-1alpha(1.83E-04) ,    aMEF-2(5.06E-04) ,    RSRFC4(5.09E-04) ,    Crx(7.54E-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 AAAATTAmAA TTkTAATTTT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 23 19 21 17 0 0 21 11 23 17
C 0 0 0 0 0 3 0 12 0 0
G 0 0 0 0 0 0 2 0 0 0
T 0 4 2 6 23 20 0 0 0 6
A A A A T T A m A A
1 2 3 4 5 6 7 8 9 10
A 6 0 0 0 20 23 6 2 4 0
C 0 0 0 2 0 0 0 0 0 0
G 0 0 12 0 3 0 0 0 0 0
T 17 23 11 21 0 0 17 21 19 23
T T k T A A T T T 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
ENSMUSG00000059134 Target Mus musculus chr10:129,385,351-129,385,360 + AAAATTAAAA – TTTTAATTTT
ENSMUSG00000059134_BTAU Orthologue Bos taurus chr5:35,272,786-35,272,795 + AAAATCACAA – TTGTGATTTT
ENSMUSG00000059134_CFAM Orthologue Canis familiaris chr27:3,059,109-3,059,118 – AAATTTACAA + TTGTAAATTT
ENSMUSG00000059134_CJAC Orthologue Callithrix jacchus ENSMUSG00000059134_CJAC:461-470 – AAAATTACAA + TTGTAATTTT
ENSMUSG00000059134_CPOR Orthologue Cavia porcellus ENSMUSG00000059134_CPOR:529-538 – AAAATTACAA + TTGTAATTTT
ENSMUSG00000059134_DNOV Orthologue Dasypus novemcinctus scaffold_47683:1,293-1,302 + AAAATTACAA – TTGTAATTTT
ENSMUSG00000059134_ECAB Orthologue Equus caballus ENSMUSG00000059134_ECAB:768-777 – AAAATTACAA + TTGTAATTTT
ENSMUSG00000059134_ETEL Orthologue Echinops telfairi scaffold_280670:12,344-12,353 + ATAATTAAAT – ATTTAATTAT
ENSMUSG00000059134_FRUB Orthologue Fugu rubripes chrUn:265,469,885-265,469,894 – AAATTTAAAA + TTTTAAATTT
ENSMUSG00000059134_GGAL Orthologue Gallus gallus chr10:1,857,090-1,857,099 + AAAATTGAAT – ATTCAATTTT
ENSMUSG00000059134_HSAP Orthologue Homo sapiens chr12:54,150,113-54,150,122 + AAAATTACAA – TTGTAATTTT
ENSMUSG00000059134_MDOM Orthologue Monodelphis domestica scaffold_33:17,214,904-17,214,913 – AAAATTAAAT + ATTTAATTTT
ENSMUSG00000059134_MLUC Orthologue Myotis lucifugus ENSMUSG00000059134_MLUC:702-711 – AAAATTACAA + TTGTAATTTT
ENSMUSG00000059134_MMUL Orthologue Macaca mulatta SCAFFOLD70084:149,255-149,264 + ATAATTACAA – TTGTAATTAT
ENSMUSG00000059134_OCUN Orthologue Oryctolagus cuniculus scaffold_93908:2,130-2,139 – AAATTCAAAA + TTTTGAATTT
ENSMUSG00000059134_PPYG Orthologue Pongo pygmaeus ENSMUSG00000059134_PPYG:2-11 + AATTTTAAAA – TTTTAAAATT
ENSMUSG00000059134_PTRO Orthologue Pan troglodytes chr10:55,236,811-55,236,820 + AAAATTAAAA – TTTTAATTTT
ENSMUSG00000059134_RNOR Orthologue Rattus norvegicus chr7:7,914,295-7,914,304 – AAAATTAAAT + ATTTAATTTT
ENSMUSG00000059134_SARA Orthologue Sorex araneus ENSMUSG00000059134_SARA:57-66 + ATATTTACAT – ATGTAAATAT
ENSMUSG00000059134_SSCR Orthologue Sus scrofa ENSMUSG00000059134_SSCR:107-116 – AAAATTACAA + TTGTAATTTT
ENSMUSG00000059134_TBEL Orthologue Tupaia belangeri ENSMUSG00000059134_TBEL:53-62 + AATATCGAAA – TTTCGATATT
ENSMUSG00000059134_TNIG Orthologue Tetraodon nigroviridis chr16:4,600,924-4,600,933 + AAAATTACAT – ATGTAATTTT
ENSMUSG00000059134_XTRO Orthologue Xenopus tropicalis scaffold_10:4,101,214-4,101,223 – ATATTTAAAA + TTTTAAATAT

Questions or comments: cisred@bcgsc.ca