FILTERS:
pvalue:0.1
Motif craMmus188279
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 craMmus188279
Discovery p-value 2.79E-03
Motif location chr2: 88,521,454-88,521,459 (+) (6 bp)
Search region location chr2: 88,520,073-88,521,772 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 16 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus, Tetraodon nigroviridis
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.): IRF-7A(2.56E-04) ,    COMP1(7.94E-04) ,    AIRE(8.92E-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 ATGTwA TsACAT
Position frequency matrix
1 2 3 4 5 6
A 16 0 0 0 9 16
C 0 0 0 0 0 0
G 0 0 16 0 0 0
T 0 16 0 16 7 0
A T G T w A
1 2 3 4 5 6
A 0 7 16 0 16 0
C 0 0 0 16 0 0
G 0 0 0 0 0 0
T 16 9 0 0 0 16
T w A C 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
ENSMUSG00000060827 Target Mus musculus chr2:88,521,454-88,521,459 + ATGTAA – TTACAT
ENSMUSG00000060827_CFAM Orthologue Canis familiaris chr18:43,722,652-43,722,657 – ATGTAA + TTACAT
ENSMUSG00000060827_DNOV Orthologue Dasypus novemcinctus scaffold_11580:43,360-43,365 – ATGTAA + TTACAT
ENSMUSG00000060827_DRER Orthologue Danio rerio chr21:38,706,013-38,706,018 – ATGTAA + TTACAT
ENSMUSG00000060827_ETEL Orthologue Echinops telfairi scaffold_281825:39,016-39,021 + ATGTTA – TAACAT
ENSMUSG00000060827_HSAP Orthologue Homo sapiens chr11:55,174,683-55,174,688 – ATGTTA + TAACAT
ENSMUSG00000060827_LAFR Orthologue Loxodonta africana scaffold_15783:1,783-1,788 – ATGTAA + TTACAT
ENSMUSG00000060827_MDOM Orthologue Monodelphis domestica scaffold_33:16,060,156-16,060,161 + ATGTTA – TAACAT
ENSMUSG00000060827_MMUL Orthologue Macaca mulatta SCAFFOLD5079:110,357-110,362 – ATGTTA + TAACAT
ENSMUSG00000060827_OCUN Orthologue Oryctolagus cuniculus scaffold_175629:23,482-23,487 + ATGTAA – TTACAT
ENSMUSG00000060827_OGAR Orthologue Otolemur garnettii ENSMUSG00000060827_OGAR:781-786 – ATGTTA + TAACAT
ENSMUSG00000060827_PTRO Orthologue Pan troglodytes chr9:56,076,606-56,076,611 – ATGTTA + TAACAT
ENSMUSG00000060827_RNOR Orthologue Rattus norvegicus chr3:72,586,112-72,586,117 – ATGTTA + TAACAT
ENSMUSG00000060827_SARA Orthologue Sorex araneus ENSMUSG00000060827_SARA:480-485 + ATGTAA – TTACAT
ENSMUSG00000060827_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000060827_STRI:452-457 + ATGTAA – TTACAT
ENSMUSG00000060827_TNIG Orthologue Tetraodon nigroviridis chr2:14,428,552-14,428,557 + ATGTAA – TTACAT

Questions or comments: cisred@bcgsc.ca