FILTERS:
pvalue:0.1
Motif craMmus293562
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 craMmus293562
Discovery p-value 2.79E-03
Motif location chr7: 104,439,632-104,439,643 (-) (12 bp)
Search region location chr7: 104,438,705-104,440,680 (-) (1,976 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Canis familiaris, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus, Tupaia belangeri, 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.): Pax-6(3.72E-04) ,    POU3F2(4.61E-04) ,    Chx10(7.37E-04) ,    TBP(9.98E-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 AsrAATrTATTA TAATAyATTywT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 16 12 13 17 20 0 11 0 20 4 1 14
C 0 0 0 0 0 0 0 0 0 1 0 0
G 0 0 7 0 0 0 6 0 0 0 2 0
T 4 8 0 3 0 20 3 20 0 15 17 6
A w n A A T r T A T T A
1 2 3 4 5 6 7 8 9 10 11 12
A 6 17 15 0 20 3 20 0 3 0 8 4
C 0 2 0 0 0 6 0 0 0 7 0 0
G 0 0 1 0 0 0 0 0 0 0 0 0
T 14 1 4 20 0 11 0 20 17 13 12 16
T A A T A y A T T n w T

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
ENSMUSG00000058014 Target Mus musculus chr7:104,439,632-104,439,643 + ATAAATTTATTA – TAATAAATTTAT
ENSMUSG00000058014_CFAM Orthologue Canis familiaris chr21:34,595,330-34,595,341 + TAAAATGTATTT – AAATACATTTTA
ENSMUSG00000058014_CPOR Orthologue Cavia porcellus ENSMUSG00000058014_CPOR:425-436 – TAAAATTTATTT + AAATAAATTTTA
ENSMUSG00000058014_DNOV Orthologue Dasypus novemcinctus scaffold_61181:1,596-1,607 – AAAAATGTATTT + AAATACATTTTT
ENSMUSG00000058014_DRER Orthologue Danio rerio chr15:35,899,403-35,899,414 + ATAAATATAATA – TATTATATTTAT
ENSMUSG00000058014_EEUR Orthologue Erinaceus europaeus ENSMUSG00000058014_EEUR:220-231 – AAAAATGTACAT + ATGTACATTTTT
ENSMUSG00000058014_ETEL Orthologue Echinops telfairi scaffold_293626:79,775-79,786 – ATATATGTATTA + TAATACATATAT
ENSMUSG00000058014_HSAP Orthologue Homo sapiens chr11:7,775,431-7,775,442 + TAAAATATATTA – TAATATATTTTA
ENSMUSG00000058014_LAFR Orthologue Loxodonta africana scaffold_17479:62,320-62,331 – AAATATATATTT + AAATATATATTT
ENSMUSG00000058014_MDOM Orthologue Monodelphis domestica scaffold_33:18,808,915-18,808,926 – AAGAATTTATTA + TAATAAATTCTT
ENSMUSG00000058014_MLUC Orthologue Myotis lucifugus ENSMUSG00000058014_MLUC:1,610-1,621 – ATAAATATATTT + AAATATATTTAT
ENSMUSG00000058014_MMUL Orthologue Macaca mulatta SCAFFOLD105816:45,947-45,958 + ATGTATATATTA – TAATATATACAT
ENSMUSG00000058014_OCUN Orthologue Oryctolagus cuniculus scaffold_207842:12,764-12,775 – ATGAATATATTA + TAATATATTCAT
ENSMUSG00000058014_OGAR Orthologue Otolemur garnettii ENSMUSG00000058014_OGAR:200-211 – AAAAATATAAGA + TCTTATATTTTT
ENSMUSG00000058014_PTRO Orthologue Pan troglodytes chr9:7,895,546-7,895,557 + TAAAATATATTA – TAATATATTTTA
ENSMUSG00000058014_RNOR Orthologue Rattus norvegicus chr1:165,652,532-165,652,543 + ATGAATATATGA – TCATATATTCAT
ENSMUSG00000058014_SARA Orthologue Sorex araneus ENSMUSG00000058014_SARA:3-14 – AAGAATATAATA + TATTATATTCTT
ENSMUSG00000058014_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000058014_STRI:1,117-1,128 – ATGAATATATTA + TAATATATTCAT
ENSMUSG00000058014_TBEL Orthologue Tupaia belangeri ENSMUSG00000058014_TBEL:134-145 + AAAAATGTAATA – TATTACATTTTT
ENSMUSG00000058014_XTRO Orthologue Xenopus tropicalis scaffold_10:4,502,228-4,502,239 + AAGAATGTATTA – TAATACATTCTT

Questions or comments: cisred@bcgsc.ca