FILTERS:
pvalue:0.1
Motif craMmus32813
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 craMmus32813
Discovery p-value 2.79E-03
Motif location chr19: 12,540,114-12,540,119 (+) (6 bp)
Search region location chr19: 12,539,337-12,542,073 (+) (2,737 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 22 species: Mus musculus, Callithrix jacchus, Dasypus novemcinctus, Danio rerio, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Spermophilus tridecemlineatus, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (6 annot.): POU3F2(6.44E-05) ,    HOXA5(2.20E-04) ,    POU6F1_(c2)(4.70E-04) ,    Lhx3a(7.65E-04) ,    IPF1(9.30E-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 TACATT AATGTA
Position frequency matrix
1 2 3 4 5 6
A 0 21 0 22 0 1
C 0 1 22 0 0 0
G 0 0 0 0 0 0
T 22 0 0 0 22 21
T A C A T T
1 2 3 4 5 6
A 21 22 0 0 0 22
C 0 0 0 0 0 0
G 0 0 0 22 1 0
T 1 0 22 0 21 0
A A T G T 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
ENSMUSG00000046272 Target Mus musculus chr19:12,540,114-12,540,119 + TACATT – AATGTA
ENSMUSG00000046272_CJAC Orthologue Callithrix jacchus ENSMUSG00000046272_CJAC:562-567 – TACATT + AATGTA
ENSMUSG00000046272_DNOV Orthologue Dasypus novemcinctus scaffold_170430:920-925 – TACATT + AATGTA
ENSMUSG00000046272_DRER Orthologue Danio rerio chr15:35,977,052-35,977,057 + TACATT – AATGTA
ENSMUSG00000046272_ECAB Orthologue Equus caballus ENSMUSG00000046272_ECAB:756-761 – TACATT + AATGTA
ENSMUSG00000046272_EEUR Orthologue Erinaceus europaeus ENSMUSG00000046272_EEUR:206-211 – TACATA + TATGTA
ENSMUSG00000046272_ETEL Orthologue Echinops telfairi scaffold_312663:45,939-45,944 + TACATT – AATGTA
ENSMUSG00000046272_FCAT Orthologue Felis catus ENSMUSG00000046272_FCAT:321-326 – TACATT + AATGTA
ENSMUSG00000046272_GGAL Orthologue Gallus gallus chr5:58,052-58,057 – TACATT + AATGTA
ENSMUSG00000046272_HSAP Orthologue Homo sapiens chr11:58,031,982-58,031,987 + TACATT – AATGTA
ENSMUSG00000046272_LAFR Orthologue Loxodonta africana scaffold_4595:115,050-115,055 – TACATT + AATGTA
ENSMUSG00000046272_MDOM Orthologue Monodelphis domestica scaffold_33:22,570,470-22,570,475 + TACATT – AATGTA
ENSMUSG00000046272_MLUC Orthologue Myotis lucifugus ENSMUSG00000046272_MLUC:237-242 – TACATT + AATGTA
ENSMUSG00000046272_MMUL Orthologue Macaca mulatta SCAFFOLD75060:135,709-135,714 + TACATT – AATGTA
ENSMUSG00000046272_OCUN Orthologue Oryctolagus cuniculus scaffold_178672:90,630-90,635 + TACATT – AATGTA
ENSMUSG00000046272_OGAR Orthologue Otolemur garnettii ENSMUSG00000046272_OGAR:454-459 – TACATT + AATGTA
ENSMUSG00000046272_PCAP Orthologue Procavia capensis ENSMUSG00000046272_PCAP:377-382 – TACATT + AATGTA
ENSMUSG00000046272_PPYG Orthologue Pongo pygmaeus ENSMUSG00000046272_PPYG:573-578 – TACATT + AATGTA
ENSMUSG00000046272_PTRO Orthologue Pan troglodytes chr9:58,971,025-58,971,030 + TACATT – AATGTA
ENSMUSG00000046272_RNOR Orthologue Rattus norvegicus chr1:216,123,782-216,123,787 – TACATT + AATGTA
ENSMUSG00000046272_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000046272_STRI:106-111 – TCCATT + AATGGA
ENSMUSG00000046272_XTRO Orthologue Xenopus tropicalis scaffold_786:101,293-101,298 – TACATT + AATGTA

Questions or comments: cisred@bcgsc.ca