FILTERS:
pvalue:0.1
Motif craMmus34536
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 craMmus34536
Discovery p-value 2.79E-03
Motif location chr11: 49,386,451-49,386,458 (+) (8 bp)
Search region location chr11: 49,385,735-49,387,434 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 15 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, 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 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (3 annot.): Brachyury(5.77E-04) ,    LUN-1(6.95E-04) ,    POU3F2(9.05E-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 TwCATTTT AAAATGsA
Position frequency matrix
1 2 3 4 5 6 7 8
A 0 7 0 15 0 0 0 0
C 0 0 15 0 0 0 0 0
G 0 0 0 0 4 0 0 0
T 15 8 0 0 11 15 15 15
T w C A T T T T
1 2 3 4 5 6 7 8
A 15 15 15 11 0 0 8 15
C 0 0 0 4 0 0 0 0
G 0 0 0 0 0 15 0 0
T 0 0 0 0 15 0 7 0
A A A A T G w 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
ENSMUSG00000046575 Target Mus musculus chr11:49,386,451-49,386,458 + TACATTTT – AAAATGTA
ENSMUSG00000046575_BTAU Orthologue Bos taurus chr3:62,404,890-62,404,897 + TTCAGTTT – AAACTGAA
ENSMUSG00000046575_CFAM Orthologue Canis familiaris chr35:28,236,451-28,236,458 + TACATTTT – AAAATGTA
ENSMUSG00000046575_DNOV Orthologue Dasypus novemcinctus scaffold_11615:11,181-11,188 + TTCATTTT – AAAATGAA
ENSMUSG00000046575_ETEL Orthologue Echinops telfairi scaffold_211188:4,539-4,546 – TTCATTTT + AAAATGAA
ENSMUSG00000046575_GGAL Orthologue Gallus gallus chr5:57,684-57,691 + TTCATTTT – AAAATGAA
ENSMUSG00000046575_HSAP Orthologue Homo sapiens chr5:180,100,426-180,100,433 + TACAGTTT – AAACTGTA
ENSMUSG00000046575_LAFR Orthologue Loxodonta africana scaffold_31389:18,242-18,249 – TTCATTTT + AAAATGAA
ENSMUSG00000046575_MDOM Orthologue Monodelphis domestica scaffold_42:19,864,726-19,864,733 + TTCATTTT – AAAATGAA
ENSMUSG00000046575_MMUL Orthologue Macaca mulatta SCAFFOLD53:51,459-51,466 + TACAGTTT – AAACTGTA
ENSMUSG00000046575_OCUN Orthologue Oryctolagus cuniculus scaffold_133283:1,197-1,204 + TTCATTTT – AAAATGAA
ENSMUSG00000046575_PTRO Orthologue Pan troglodytes chr4:187,639,123-187,639,130 – TTCATTTT + AAAATGAA
ENSMUSG00000046575_RNOR Orthologue Rattus norvegicus chr10:34,819,020-34,819,027 + TACATTTT – AAAATGTA
ENSMUSG00000046575_TNIG Orthologue Tetraodon nigroviridis Un_random:124,233,963-124,233,970 – TACATTTT + AAAATGTA
ENSMUSG00000046575_XTRO Orthologue Xenopus tropicalis scaffold_7:2,945,243-2,945,250 – TACAGTTT + AAACTGTA

Questions or comments: cisred@bcgsc.ca