FILTERS:
pvalue:0.1
Motif craMmus209164
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 craMmus209164
Discovery p-value 2.79E-03
Motif location chr16: 19,116,990-19,116,997 (-) (8 bp)
Search region location chr16: 19,116,703-19,118,798 (-) (2,096 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 15 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Homo sapiens, Loxodonta africana, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pan troglodytes, Rattus norvegicus, Sus scrofa, 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 2 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): HOXA5(1.13E-04) ,    S8(3.78E-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 AATrAAAT ATTTyATT
Position frequency matrix
1 2 3 4 5 6 7 8
A 15 15 0 7 15 13 12 0
C 0 0 0 1 0 0 0 0
G 0 0 0 7 0 0 3 0
T 0 0 15 0 0 2 0 15
A A T r A A A T
1 2 3 4 5 6 7 8
A 15 0 2 0 0 15 0 0
C 0 3 0 0 7 0 0 0
G 0 0 0 0 1 0 0 0
T 0 12 13 15 7 0 15 15
A T T T y 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
ENSMUSG00000068535 Target Mus musculus chr16:19,116,990-19,116,997 + AATGAAGT – ACTTCATT
ENSMUSG00000068535_CFAM Orthologue Canis familiaris chr14:4,489,365-4,489,372 + AATGAAAT – ATTTCATT
ENSMUSG00000068535_DNOV Orthologue Dasypus novemcinctus scaffold_9381:751-758 – AATGAAAT + ATTTCATT
ENSMUSG00000068535_ECAB Orthologue Equus caballus ENSMUSG00000068535_ECAB:262-269 – AATGAAGT + ACTTCATT
ENSMUSG00000068535_ETEL Orthologue Echinops telfairi scaffold_293493:92,251-92,258 – AATCAAAT + ATTTGATT
ENSMUSG00000068535_HSAP Orthologue Homo sapiens chr1:244,421,942-244,421,949 – AATAAAAT + ATTTTATT
ENSMUSG00000068535_LAFR Orthologue Loxodonta africana scaffold_5551:5,650-5,657 – AATAAAAT + ATTTTATT
ENSMUSG00000068535_MMUL Orthologue Macaca mulatta SCAFFOLD80455:32,507-32,514 + AATAAAAT – ATTTTATT
ENSMUSG00000068535_OCUN Orthologue Oryctolagus cuniculus scaffold_175346:43,228-43,235 – AATAAAAT + ATTTTATT
ENSMUSG00000068535_OGAR Orthologue Otolemur garnettii ENSMUSG00000068535_OGAR:121-128 – AATGAAAT + ATTTCATT
ENSMUSG00000068535_PTRO Orthologue Pan troglodytes chr1:228,489,248-228,489,255 – AATAAAAT + ATTTTATT
ENSMUSG00000068535_RNOR Orthologue Rattus norvegicus chr11:83,598,057-83,598,064 – AATGAAAT + ATTTCATT
ENSMUSG00000068535_SSCR Orthologue Sus scrofa ENSMUSG00000068535_SSCR:94-101 – AATAATAT + ATATTATT
ENSMUSG00000068535_TNIG Orthologue Tetraodon nigroviridis chr2:14,428,179-14,428,186 – AATAAAGT + ACTTTATT
ENSMUSG00000068535_XTRO Orthologue Xenopus tropicalis scaffold_786:310,189-310,196 – AATGATAT + ATATCATT

Questions or comments: cisred@bcgsc.ca