FILTERS:
pvalue:0.1
Motif craMmus404894
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 craMmus404894
Discovery p-value 2.79E-03
Motif location chr7: 82,519,311-82,519,323 (+) (13 bp)
Search region location chr7: 82,518,620-82,520,634 (+) (2,015 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 13 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, 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.): Pbx1a(1.22E-04) ,    CAR(4.29E-04) ,    Nkx2-5(4.52E-04) ,    HNF-1alpha(7.98E-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 ATmATAATwTTyA TrAAsATTATkAT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12 13
A 7 1 5 13 0 13 13 0 5 4 2 1 13
C 3 3 5 0 0 0 0 0 0 1 0 7 0
G 2 1 2 0 0 0 0 0 0 0 3 0 0
T 1 8 1 0 13 0 0 13 8 8 8 5 0
m T m A T A A T n T T y A
1 2 3 4 5 6 7 8 9 10 11 12 13
A 0 5 8 8 8 13 0 0 13 0 1 8 1
C 0 0 3 0 0 0 0 0 0 0 2 1 2
G 0 7 0 1 0 0 0 0 0 0 5 3 3
T 13 1 2 4 5 0 13 13 0 13 5 1 7
T r A A n A T T A T k A k

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
ENSMUSG00000059319 Target Mus musculus chr7:82,519,311-82,519,323 + ATCATAATTTTCA – TGAAAATTATGAT
ENSMUSG00000059319_CFAM Orthologue Canis familiaris chr14:5,335,040-5,335,052 – CTTATAATAAACA + TGTTTATTATAAG
ENSMUSG00000059319_DNOV Orthologue Dasypus novemcinctus scaffold_39105:4,724-4,736 – GTGATAATTTTTA + TAAAAATTATCAC
ENSMUSG00000059319_DRER Orthologue Danio rerio chr21:38,717,859-38,717,871 + GTAATAATAAGTA – TACTTATTATTAC
ENSMUSG00000059319_ETEL Orthologue Echinops telfairi scaffold_267478:3,925-3,937 – ACCATAATATTAA + TTAATATTATGGT
ENSMUSG00000059319_HSAP Orthologue Homo sapiens chr1:244,836,136-244,836,148 – ATAATAATTTGCA + TGCAAATTATTAT
ENSMUSG00000059319_LAFR Orthologue Loxodonta africana scaffold_78794:37-49 + TTGATAATTTTCA – TGAAAATTATCAA
ENSMUSG00000059319_MDOM Orthologue Monodelphis domestica scaffold_121:3,000,442-3,000,454 – CTAATAATTATTA + TAATAATTATTAG
ENSMUSG00000059319_MMUL Orthologue Macaca mulatta SCAFFOLD478:4,846-4,858 + AACATAATATTCA – TGAATATTATGTT
ENSMUSG00000059319_OCUN Orthologue Oryctolagus cuniculus scaffold_177516:101,962-101,974 + CCCATAATTTTCA – TGAAAATTATGGG
ENSMUSG00000059319_PTRO Orthologue Pan troglodytes chr1:228,897,249-228,897,261 – ACAATAATTTGTA + TACAAATTATTGT
ENSMUSG00000059319_RNOR Orthologue Rattus norvegicus chr1:142,913,707-142,913,719 – ATCATAATAAACA + TGTTTATTATGAT
ENSMUSG00000059319_XTRO Orthologue Xenopus tropicalis scaffold_7:4,564,702-4,564,714 – AGAATAATTCTTA + TAAGAATTATTCT

Questions or comments: cisred@bcgsc.ca