FILTERS:
pvalue:0.1
Motif craMmus181612
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 craMmus181612
Discovery p-value 2.79E-03
Motif location chr2: 87,739,060-87,739,071 (+) (12 bp)
Search region location chr2: 87,738,345-87,740,092 (+) (1,748 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 14 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 1 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (1 annot.): POU2F1(7.48E-04)
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 wwTAyATryAww ssTryATrTAss
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 4 7 0 12 0 14 0 5 0 14 7 5
C 3 0 0 0 9 0 0 0 9 0 3 0
G 0 0 0 2 0 0 1 9 0 0 0 0
T 7 7 14 0 5 0 13 0 5 0 4 9
w w T A n A T n n A w n
1 2 3 4 5 6 7 8 9 10 11 12
A 9 4 0 5 0 13 0 5 0 14 7 7
C 0 0 0 0 9 1 0 0 2 0 0 0
G 0 3 0 9 0 0 0 9 0 0 0 3
T 5 7 14 0 5 0 14 0 12 0 7 4
n w T n n A T n T A w 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
ENSMUSG00000048197 Target Mus musculus chr2:87,739,060-87,739,071 + TATATATGCAAT – ATTGCATATATA
ENSMUSG00000048197_CFAM Orthologue Canis familiaris chr18:43,100,479-43,100,490 + AATATATACATT – AATGTATATATT
ENSMUSG00000048197_DNOV Orthologue Dasypus novemcinctus scaffold_18954:3,526-3,537 – TTTACAGATAAT + ATTATCTGTAAA
ENSMUSG00000048197_DRER Orthologue Danio rerio chr15:36,011,512-36,011,523 – CTTACATGCACA + TGTGCATGTAAG
ENSMUSG00000048197_ETEL Orthologue Echinops telfairi scaffold_293493:198,023-198,034 – TATGTATATAAT + ATTATATACATA
ENSMUSG00000048197_HSAP Orthologue Homo sapiens chr11:55,438,885-55,438,896 + CTTACATGCAAT – ATTGCATGTAAG
ENSMUSG00000048197_LAFR Orthologue Loxodonta africana scaffold_3668:116,827-116,838 – AATACATATAAA + TTTATATGTATT
ENSMUSG00000048197_MDOM Orthologue Monodelphis domestica scaffold_33:16,653,633-16,653,644 – TATATATGCACA + TGTGCATATATA
ENSMUSG00000048197_MMUL Orthologue Macaca mulatta SCAFFOLD115116:157,002-157,013 – TTTATATGCAAT + ATTGCATATAAA
ENSMUSG00000048197_OCUN Orthologue Oryctolagus cuniculus scaffold_173414:66,354-66,365 – AATACATGTATA + TATACATGTATT
ENSMUSG00000048197_PTRO Orthologue Pan troglodytes 9_random:27,081,705-27,081,716 + CTTACATGCAAT – ATTGCATGTAAG
ENSMUSG00000048197_RNOR Orthologue Rattus norvegicus chr3:71,577,823-71,577,834 – TTTACATGCACT + AGTGCATGTAAA
ENSMUSG00000048197_SSCR Orthologue Sus scrofa ENSMUSG00000048197_SSCR:76-87 + ATTGCATATATA – TATATATGCAAT
ENSMUSG00000048197_XTRO Orthologue Xenopus tropicalis scaffold_10:4,100,962-4,100,973 – TATACATGCATT + AATGCATGTATA

Questions or comments: cisred@bcgsc.ca