FILTERS:
pvalue:0.1
Motif craMmus7074
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 craMmus7074
Discovery p-value 4.40E-03
Motif location chr6: 134,933,350-134,933,355 (+) (6 bp)
Search region location chr6: 134,933,031-134,934,938 (+) (1,908 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 6 species: Mus musculus, 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 9 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (7 annot.): CUTL1(1.22E-04) ,    HNF-3(1.85E-04) ,    FOXJ2(2.00E-04) ,    Pax-2(3.61E-04) ,    HNF-3(5.45E-04) ...
ORegAnno: (2 annot.): FoxA1(4.25E-06) ,    FoxA1(2.76E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AATATT AATATT
Position frequency matrix
1 2 3 4 5 6
A 6 6 0 6 0 0
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 0 0 6 0 6 6
A A T A T T
1 2 3 4 5 6
A 6 6 0 6 0 0
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 0 0 6 0 6 6
A A T A 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
ENSMUSG00000003031 Target Mus musculus chr6:134,933,350-134,933,355 + AATATT – AATATT
ENSMUSG00000003031_HSAP Orthologue Homo sapiens chr12:12,760,181-12,760,186 + AATATT – AATATT
ENSMUSG00000003031_MMUL Orthologue Macaca mulatta SCAFFOLD21223:44,260-44,265 + AATATT – AATATT
ENSMUSG00000003031_OGAR Orthologue Otolemur garnettii ENSMUSG00000003031_OGAR:246-251 + AATATT – AATATT
ENSMUSG00000003031_PTRO Orthologue Pan troglodytes chr10:13,377,425-13,377,430 + AATATT – AATATT
ENSMUSG00000003031_RNOR Orthologue Rattus norvegicus chr4:172,085,095-172,085,100 + AATATT – AATATT

Questions or comments: cisred@bcgsc.ca