FILTERS:
pvalue:0.1
Motif craMmus38834
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 craMmus38834
Discovery p-value 2.79E-03
Motif location chr7: 104,017,506-104,017,513 (+) (8 bp)
Search region location chr7: 104,016,356-104,018,466 (+) (2,111 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 13 species: Mus musculus, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Fugu rubripes, 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 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): RSRFC4(2.89E-04) ,    FOXJ2(3.72E-04) ,    RSRFC4(4.74E-04) ,    HNF-1alpha(7.60E-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 AATAATAT ATATTATT
Position frequency matrix
1 2 3 4 5 6 7 8
A 13 13 0 11 11 0 11 0
C 0 0 0 0 0 0 0 0
G 0 0 0 0 2 0 2 0
T 0 0 13 2 0 13 0 13
A A T A A T A T
1 2 3 4 5 6 7 8
A 13 0 13 0 2 13 0 0
C 0 2 0 2 0 0 0 0
G 0 0 0 0 0 0 0 0
T 0 11 0 11 11 0 13 13
A T A T T 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
ENSMUSG00000061975 Target Mus musculus chr7:104,017,506-104,017,513 + AATAATAT – ATATTATT
ENSMUSG00000061975_DNOV Orthologue Dasypus novemcinctus scaffold_113544:4,851-4,858 + AATAGTAT – ATACTATT
ENSMUSG00000061975_DRER Orthologue Danio rerio chr15:36,042,293-36,042,300 – AATTATAT + ATATAATT
ENSMUSG00000061975_ETEL Orthologue Echinops telfairi scaffold_293626:81,071-81,078 + AATAATAT – ATATTATT
ENSMUSG00000061975_FRUB Orthologue Fugu rubripes chrUn:265,468,946-265,468,953 – AATAATGT + ACATTATT
ENSMUSG00000061975_HSAP Orthologue Homo sapiens chr11:7,776,248-7,776,255 + AATAATAT – ATATTATT
ENSMUSG00000061975_LAFR Orthologue Loxodonta africana scaffold_52470:6,068-6,075 + AATAATAT – ATATTATT
ENSMUSG00000061975_MDOM Orthologue Monodelphis domestica scaffold_33:18,998,933-18,998,940 – AATTATAT + ATATAATT
ENSMUSG00000061975_MMUL Orthologue Macaca mulatta SCAFFOLD105816:44,836-44,843 + AATAATAT – ATATTATT
ENSMUSG00000061975_OCUN Orthologue Oryctolagus cuniculus scaffold_207842:13,014-13,021 + AATAATAT – ATATTATT
ENSMUSG00000061975_PTRO Orthologue Pan troglodytes chr9:7,896,346-7,896,353 + AATAATAT – ATATTATT
ENSMUSG00000061975_RNOR Orthologue Rattus norvegicus chr1:165,652,345-165,652,352 – AATAGTAT + ATACTATT
ENSMUSG00000061975_XTRO Orthologue Xenopus tropicalis scaffold_10:4,195,880-4,195,887 – AATAATGT + ACATTATT

Questions or comments: cisred@bcgsc.ca