FILTERS:
pvalue:0.1
Motif craMmus266877
More information about this gene at Ensembl.org Go to UCSC
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+ has a discovery p-value < 0.1
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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 craMmus266877
Discovery p-value 1.88E-03
Motif location chr7: 122,368,760-122,368,776 (+) (17 bp)
Search region location chr7: 122,366,999-122,369,376 (+) (2,378 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 11 species: Mus musculus, Canis familiaris, Cavia porcellus, Felis catus, Homo sapiens, Myotis lucifugus, Otolemur garnettii, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Tupaia belangeri
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 0 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (0 annot.): none
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 No annotation-based modules contain this motif.
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AGTCTrGGrCAGTCTGG CCAGACTGyCCyAGACT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17
A 9 0 0 0 0 4 0 1 4 0 10 2 2 1 1 1 0
C 0 0 0 11 0 0 0 0 0 11 0 0 0 7 2 2 1
G 1 8 0 0 0 7 11 10 5 0 0 8 1 2 2 7 10
T 1 3 11 0 11 0 0 0 2 0 1 1 8 1 6 1 0
A G T C T n G G r C A G T C T G G
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17
A 0 1 6 1 8 1 1 0 2 0 0 0 11 0 11 3 1
C 10 7 2 2 1 8 0 0 5 10 11 7 0 0 0 8 1
G 1 2 2 7 0 0 0 11 0 0 0 0 0 11 0 0 0
T 0 1 1 1 2 2 10 0 4 1 0 4 0 0 0 0 9
C C A G A C T G y C C n A G A C 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
ENSMUSG00000042978 Target Mus musculus chr7:122,368,760-122,368,776 + AGTCTGGGACAGTCTAG – CTAGACTGTCCCAGACT
ENSMUSG00000042978_CFAM Orthologue Canis familiaris chr6:21,530,915-21,530,931 – ATTCTAGAACAAAAGTG + CACTTTTGTTCTAGAAT
ENSMUSG00000042978_CPOR Orthologue Cavia porcellus ENSMUSG00000042978_CPOR:163-179 + AGTCTGGGGCAGTCTGG – CCAGACTGCCCCAGACT
ENSMUSG00000042978_FCAT Orthologue Felis catus ENSMUSG00000042978_FCAT:225-241 + AGTCTAGGGCAGTCTGG – CCAGACTGCCCTAGACT
ENSMUSG00000042978_HSAP Orthologue Homo sapiens chr16:28,211,056-28,211,072 – TTTCTAGGTCAGAGCCC + GGGCTCTGACCTAGAAA
ENSMUSG00000042978_MLUC Orthologue Myotis lucifugus ENSMUSG00000042978_MLUC:175-191 + AGTCTGGGACAATCTGG – CCAGATTGTCCCAGACT
ENSMUSG00000042978_OGAR Orthologue Otolemur garnettii ENSMUSG00000042978_OGAR:299-315 + AGTCTGGGGCAGTTCGG – CCGAACTGCCCCAGACT
ENSMUSG00000042978_PPYG Orthologue Pongo pygmaeus ENSMUSG00000042978_PPYG:410-426 – GTTCTAGGTCTTGGGGG + CCCCCAAGACCTAGAAC
ENSMUSG00000042978_PTRO Orthologue Pan troglodytes chr18:28,909,772-28,909,788 + AGTCTGGGGCAGTCTCG – CGAGACTGCCCCAGACT
ENSMUSG00000042978_RNOR Orthologue Rattus norvegicus chr1:185,493,736-185,493,752 + AGTCTGGGACAGTCTGG – CCAGACTGTCCCAGACT
ENSMUSG00000042978_TBEL Orthologue Tupaia belangeri ENSMUSG00000042978_TBEL:86-102 + AGTCTGGGGCAGTCAGG – CCTGACTGCCCCAGACT

Questions or comments: cisred@bcgsc.ca