FILTERS:
pvalue:0.1
Motif craMmus173205
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 craMmus173205
Discovery p-value 2.79E-03
Motif location chr2: 88,304,842-88,304,853 (+) (12 bp)
Search region location chr2: 88,303,376-88,305,257 (+) (1,882 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 13 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, 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 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (3 annot.): POU2F1(1.21E-04) ,    FOXP1a(3.52E-04) ,    MEF-2A(6.58E-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 wTATTwTTATTn nAATAAsAATAs
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 7 3 13 4 0 7 0 0 13 0 0 4
C 0 0 0 0 0 0 0 2 0 0 0 2
G 1 0 0 0 0 2 0 0 0 0 0 3
T 5 10 0 9 13 4 13 11 0 13 13 4
w T A T T w T T A T T n
1 2 3 4 5 6 7 8 9 10 11 12
A 4 13 13 0 11 13 4 13 9 0 10 5
C 3 0 0 0 0 0 2 0 0 0 0 1
G 2 0 0 0 2 0 0 0 0 0 0 0
T 4 0 0 13 0 0 7 0 4 13 3 7
n A A T A A w A A T A 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
ENSMUSG00000049372 Target Mus musculus chr2:88,304,842-88,304,853 + ATATTTTTATTC – GAATAAAAATAT
ENSMUSG00000049372_BTAU Orthologue Bos taurus chr5:3,238,688-3,238,699 – AAAATATTATTT + AAATAATATTTT
ENSMUSG00000049372_CFAM Orthologue Canis familiaris chr18:44,029,204-44,029,215 + ATATTTTTATTG – CAATAAAAATAT
ENSMUSG00000049372_DNOV Orthologue Dasypus novemcinctus scaffold_103116:5,874-5,885 – ATATTTTTATTT + AAATAAAAATAT
ENSMUSG00000049372_DRER Orthologue Danio rerio chr10:33,905,309-33,905,320 – ATATTATTATTA + TAATAATAATAT
ENSMUSG00000049372_ETEL Orthologue Echinops telfairi scaffold_291308:85,185-85,196 – AAAATGTTATTG + CAATAACATTTT
ENSMUSG00000049372_FRUB Orthologue Fugu rubripes chrUn:56,772,139-56,772,150 – TTAATGTTATTT + AAATAACATTAA
ENSMUSG00000049372_GGAL Orthologue Gallus gallus chr5:2,425,266-2,425,277 – AAAATATTATTG + CAATAATATTTT
ENSMUSG00000049372_HSAP Orthologue Homo sapiens chr11:55,128,630-55,128,641 + TTATTATTATTA – TAATAATAATAA
ENSMUSG00000049372_LAFR Orthologue Loxodonta africana scaffold_20975:11,465-11,476 + TTATTTTCATTA – TAATGAAAATAA
ENSMUSG00000049372_MDOM Orthologue Monodelphis domestica scaffold_33:18,189,030-18,189,041 + GTATTATCATTA – TAATGATAATAC
ENSMUSG00000049372_RNOR Orthologue Rattus norvegicus chr3:72,258,126-72,258,137 – TTATTATTATTT + AAATAATAATAA
ENSMUSG00000049372_XTRO Orthologue Xenopus tropicalis scaffold_10:4,350,314-4,350,325 + TTATTATTATTC – GAATAATAATAA

Questions or comments: cisred@bcgsc.ca