FILTERS:
pvalue:0.1
Motif craMmus168023
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 craMmus168023
Discovery p-value 2.79E-03
Motif location chr2: 87,710,823-87,710,832 (+) (10 bp)
Search region location chr2: 87,710,132-87,711,908 (+) (1,777 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 13 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 2 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): POU1F1(8.42E-05) ,    Stra13(8.31E-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 wwTrCATGTA TACATGyAss
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 5 7 0 8 0 12 0 3 0 13
C 2 0 0 0 10 1 0 0 0 0
G 0 2 0 5 0 0 0 10 0 0
T 6 4 13 0 3 0 13 0 13 0
w w T n C A T G T A
1 2 3 4 5 6 7 8 9 10
A 0 13 0 13 0 3 0 13 4 6
C 0 0 10 0 0 0 5 0 2 0
G 0 0 0 0 1 10 0 0 0 2
T 13 0 3 0 12 0 8 0 7 5
T A C A T G n A w w

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
ENSMUSG00000045225 Target Mus musculus chr2:87,710,823-87,710,832 + TATGCATGTA – TACATGCATA
ENSMUSG00000045225_CFAM Orthologue Canis familiaris chr18:43,091,144-43,091,153 + TGTACATGTA – TACATGTACA
ENSMUSG00000045225_DNOV Orthologue Dasypus novemcinctus scaffold_8444:3,041-3,050 – AATGTATGTA + TACATACATT
ENSMUSG00000045225_DRER Orthologue Danio rerio chr10:33,690,380-33,690,389 + TATATATATA – TATATATATA
ENSMUSG00000045225_ETEL Orthologue Echinops telfairi scaffold_184773:1,717-1,726 + TTTATCTGTA – TACAGATAAA
ENSMUSG00000045225_HSAP Orthologue Homo sapiens chr11:55,439,126-55,439,135 – CTTACATGTA + TACATGTAAG
ENSMUSG00000045225_LAFR Orthologue Loxodonta africana scaffold_1215:66,317-66,326 + AATACATATA – TATATGTATT
ENSMUSG00000045225_MDOM Orthologue Monodelphis domestica scaffold_33:16,665,830-16,665,839 – TGTGCATGTA + TACATGCACA
ENSMUSG00000045225_MMUL Orthologue Macaca mulatta SCAFFOLD115116:157,002-157,011 + ATTGCATATA – TATATGCAAT
ENSMUSG00000045225_OCUN Orthologue Oryctolagus cuniculus scaffold_173414:66,354-66,363 + TATACATGTA – TACATGTATA
ENSMUSG00000045225_PTRO Orthologue Pan troglodytes 9_random:27,081,946-27,081,955 – CTTACATGTA + TACATGTAAG
ENSMUSG00000045225_RNOR Orthologue Rattus norvegicus chr3:71,570,855-71,570,864 + AATACATGTA – TACATGTATT
ENSMUSG00000045225_XTRO Orthologue Xenopus tropicalis scaffold_10:4,090,757-4,090,766 + AATGCATGTA – TACATGCATT

Questions or comments: cisred@bcgsc.ca