FILTERS:
pvalue:0.1
Motif craMmus306071
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 craMmus306071
Discovery p-value 2.79E-03
Motif location chr2: 87,214,961-87,214,970 (+) (10 bp)
Search region location chr2: 87,213,574-87,215,449 (+) (1,876 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, Oryctolagus cuniculus, Procavia capensis, 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 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (6 annot.): TEF(6.52E-05) ,    aMEF-2(1.88E-04) ,    Nkx6-2(2.61E-04) ,    POU2F1(4.92E-04) ,    AIRE(9.62E-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 wTAwTTAAAT ATTTAAsTAs
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 7 0 13 4 0 4 11 10 13 0
C 0 0 0 2 0 0 0 0 0 0
G 0 0 0 0 0 0 0 3 0 0
T 6 13 0 7 13 9 2 0 0 13
w T A w T T A A A T
1 2 3 4 5 6 7 8 9 10
A 13 0 0 2 9 13 7 0 13 6
C 0 0 3 0 0 0 0 0 0 0
G 0 0 0 0 0 0 2 0 0 0
T 0 13 10 11 4 0 4 13 0 7
A T T T A A w T A 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
ENSMUSG00000070852 Target Mus musculus chr2:87,214,961-87,214,970 + ATATTTAAAT – ATTTAAATAT
ENSMUSG00000070852_CFAM Orthologue Canis familiaris chr18:42,948,233-42,948,242 + TTACTTAAAT – ATTTAAGTAA
ENSMUSG00000070852_DNOV Orthologue Dasypus novemcinctus scaffold_56550:5,091-5,100 + TTATTTAGAT – ATCTAAATAA
ENSMUSG00000070852_DRER Orthologue Danio rerio chr21:38,803,766-38,803,775 + ATATTTAAAT – ATTTAAATAT
ENSMUSG00000070852_ETEL Orthologue Echinops telfairi scaffold_240389:10,417-10,426 + ATAATATAAT – ATTATATTAT
ENSMUSG00000070852_HSAP Orthologue Homo sapiens chr11:55,494,206-55,494,215 + TTAATTAAAT – ATTTAATTAA
ENSMUSG00000070852_LAFR Orthologue Loxodonta africana scaffold_17988:22,672-22,681 + ATATTTAAAT – ATTTAAATAT
ENSMUSG00000070852_MDOM Orthologue Monodelphis domestica scaffold_33:17,490,574-17,490,583 – TTAATTAAAT + ATTTAATTAA
ENSMUSG00000070852_OCUN Orthologue Oryctolagus cuniculus scaffold_110707:14,897-14,906 – TTACTAAAAT + ATTTTAGTAA
ENSMUSG00000070852_PCAP Orthologue Procavia capensis ENSMUSG00000070852_PCAP:52-61 – ATATTTTGAT + ATCAAAATAT
ENSMUSG00000070852_PTRO Orthologue Pan troglodytes 9_random:27,135,980-27,135,989 – ATAATAAGAT + ATCTTATTAT
ENSMUSG00000070852_RNOR Orthologue Rattus norvegicus chr3:70,899,152-70,899,161 – ATATTTAAAT + ATTTAAATAT
ENSMUSG00000070852_XTRO Orthologue Xenopus tropicalis scaffold_10:4,823,101-4,823,110 – TTATTAAAAT + ATTTTAATAA

Questions or comments: cisred@bcgsc.ca