FILTERS:
pvalue:0.1
Motif craMmus417865
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 craMmus417865
Discovery p-value 2.79E-03
Motif location chr7: 104,580,952-104,580,961 (+) (10 bp)
Search region location chr7: 104,580,854-104,582,573 (+) (1,720 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 16 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Equus caballus, Erinaceus europaeus, Echinops telfairi, Homo sapiens, Loxodonta africana, Macaca mulatta, Oryctolagus cuniculus, Pongo pygmaeus, 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 11 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (10 annot.): HNF-1alpha(8.17E-05) ,    FOXD3(1.66E-04) ,    FOXP1a(2.44E-04) ,    HNF-1alpha(4.46E-04) ,    POU3F2(4.61E-04) ...
ORegAnno: (1 annot.): FoxA1(2.69E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence ATATrTwTAT ATAsAyATAT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 16 3 13 1 10 0 7 1 16 0
C 0 0 0 0 0 5 0 2 0 0
G 0 0 3 0 6 0 3 0 0 0
T 0 13 0 15 0 11 6 13 0 16
A T A T n T w T A T
1 2 3 4 5 6 7 8 9 10
A 16 0 13 6 11 0 15 0 13 0
C 0 0 0 3 0 6 0 3 0 0
G 0 0 2 0 5 0 0 0 0 0
T 0 16 1 7 0 10 1 13 3 16
A T A w A n A T A 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
ENSMUSG00000061782 Target Mus musculus chr7:104,580,952-104,580,961 + AAATATTTAT – ATAAATATTT
ENSMUSG00000061782_CFAM Orthologue Canis familiaris chr21:34,595,238-34,595,247 – ATATGTTAAT + ATTAACATAT
ENSMUSG00000061782_DNOV Orthologue Dasypus novemcinctus scaffold_61181:1,434-1,443 + ATATGCTTAT – ATAAGCATAT
ENSMUSG00000061782_DRER Orthologue Danio rerio chr15:36,037,939-36,037,948 + ATATACATAT – ATATGTATAT
ENSMUSG00000061782_ECAB Orthologue Equus caballus ENSMUSG00000061782_ECAB:250-259 – AAATATGCAT + ATGCATATTT
ENSMUSG00000061782_EEUR Orthologue Erinaceus europaeus ENSMUSG00000061782_EEUR:192-201 + ATATACATAT – ATATGTATAT
ENSMUSG00000061782_ETEL Orthologue Echinops telfairi scaffold_293626:79,858-79,867 – ATATGCATAT + ATATGCATAT
ENSMUSG00000061782_HSAP Orthologue Homo sapiens chr11:7,775,150-7,775,159 – ATGTATATAT + ATATATACAT
ENSMUSG00000061782_LAFR Orthologue Loxodonta africana scaffold_17479:62,028-62,037 + ATATGTATAT – ATATACATAT
ENSMUSG00000061782_MMUL Orthologue Macaca mulatta SCAFFOLD105816:45,567-45,576 + ATATACATAT – ATATGTATAT
ENSMUSG00000061782_OCUN Orthologue Oryctolagus cuniculus scaffold_207842:12,766-12,775 + ATATATTCAT – ATGAATATAT
ENSMUSG00000061782_PPYG Orthologue Pongo pygmaeus ENSMUSG00000061782_PPYG:95-104 – ATGTGTTTAT + ATAAACACAT
ENSMUSG00000061782_PTRO Orthologue Pan troglodytes chr9:7,895,264-7,895,273 – ATGTATATAT + ATATATACAT
ENSMUSG00000061782_RNOR Orthologue Rattus norvegicus chr1:166,193,053-166,193,062 – ATATATTTAT + ATAAATATAT
ENSMUSG00000061782_TNIG Orthologue Tetraodon nigroviridis chr16:4,610,003-4,610,012 + ATATGTGTAT – ATACACATAT
ENSMUSG00000061782_XTRO Orthologue Xenopus tropicalis scaffold_7:2,837,312-2,837,321 + AAAAATGTAT – ATACATTTTT

Questions or comments: cisred@bcgsc.ca