FILTERS:
pvalue:0.1
Motif craMmus304492
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 craMmus304492
Discovery p-value 2.79E-03
Motif location chr2: 87,213,772-87,213,783 (+) (12 bp)
Search region location chr2: 87,213,574-87,215,449 (+) (1,876 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 14 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Danio rerio, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Rattus norvegicus
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.): FOXP3(3.19E-04) ,    Cdx-2(3.55E-04) ,    E4BP4(7.51E-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 TwTnwTATyATw sATrATAsnAsA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 4 6 0 2 9 0 9 3 0 14 0 7
C 0 0 0 2 0 0 0 0 5 0 0 0
G 0 0 0 3 0 0 3 1 0 0 0 0
T 10 8 14 7 5 14 2 10 9 0 14 7
T w T n n T A T n A T w
1 2 3 4 5 6 7 8 9 10 11 12
A 7 14 0 9 10 2 14 5 7 14 8 10
C 0 0 0 0 1 3 0 0 3 0 0 0
G 0 0 0 5 0 0 0 0 2 0 0 0
T 7 0 14 0 3 9 0 9 2 0 6 4
w A T n A T A n n A w A

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
ENSMUSG00000070852 Target Mus musculus chr2:87,213,772-87,213,783 + ATTTATATCATA – TATGATATAAAT
ENSMUSG00000070852_CFAM Orthologue Canis familiaris chr18:42,948,194-42,948,205 + AATCATATCATT – AATGATATGATT
ENSMUSG00000070852_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000070852_CHOF:344-355 + ATTTTTATTATT – AATAATAAAAAT
ENSMUSG00000070852_DNOV Orthologue Dasypus novemcinctus scaffold_56550:6,039-6,050 – TTTTATGTTATT + AATAACATAAAA
ENSMUSG00000070852_DRER Orthologue Danio rerio chr21:38,800,678-38,800,689 – TATGTTATCATT + AATGATAACATA
ENSMUSG00000070852_FRUB Orthologue Fugu rubripes chrUn:265,456,920-265,456,931 – TTTAATGTTATA + TATAACATTAAA
ENSMUSG00000070852_GGAL Orthologue Gallus gallus chr5:57,187-57,198 – TTTTATTGCATT + AATGCAATAAAA
ENSMUSG00000070852_HSAP Orthologue Homo sapiens chr11:55,492,751-55,492,762 + TATTTTATTATA – TATAATAAAATA
ENSMUSG00000070852_LAFR Orthologue Loxodonta africana scaffold_17988:22,585-22,596 – TATTTTATTATA + TATAATAAAATA
ENSMUSG00000070852_MDOM Orthologue Monodelphis domestica scaffold_33:17,491,007-17,491,018 + TATAATAATATA – TATATTATTATA
ENSMUSG00000070852_OCUN Orthologue Oryctolagus cuniculus scaffold_110707:14,836-14,847 + ATTCATATTATT – AATAATATGAAT
ENSMUSG00000070852_PCAP Orthologue Procavia capensis ENSMUSG00000070852_PCAP:46-57 – TTTGATGATATT + AATATCATCAAA
ENSMUSG00000070852_PTRO Orthologue Pan troglodytes 9_random:27,135,897-27,135,908 + TATTTTATTATA – TATAATAAAATA
ENSMUSG00000070852_RNOR Orthologue Rattus norvegicus chr3:70,902,640-70,902,651 + TTTGATTACATA – TATGTAATCAAA

Questions or comments: cisred@bcgsc.ca