FILTERS:
pvalue:0.1
Motif craMmus294147
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 craMmus294147
Discovery p-value 2.79E-03
Motif location chr7: 104,439,315-104,439,324 (-) (10 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, Choloepus hoffmanni, Cavia porcellus, Dasypus novemcinctus, Erinaceus europaeus, Echinops telfairi, Fugu rubripes, Homo sapiens, Loxodonta africana, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pan troglodytes, Sorex araneus, Sus scrofa, 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 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (3 annot.): aMEF-2(3.91E-04) ,    Evi-1(4.59E-04) ,    RSRFC4(8.56E-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 TATGyATmTA TAkATrCATA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 0 14 0 1 0 20 1 8 0 20
C 0 0 0 0 8 0 0 10 0 0
G 0 4 0 19 0 0 0 0 2 0
T 20 2 20 0 12 0 19 2 18 0
T A T G y A T m T A
1 2 3 4 5 6 7 8 9 10
A 0 18 2 19 0 12 0 20 2 20
C 0 2 0 0 0 0 19 0 4 0
G 0 0 10 0 0 8 0 0 0 0
T 20 0 8 1 20 0 1 0 14 0
T A k A T r C A 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
ENSMUSG00000058014 Target Mus musculus chr7:104,439,315-104,439,324 + TATGTATAGA – TCTATACATA
ENSMUSG00000058014_CFAM Orthologue Canis familiaris chr21:34,596,021-34,596,030 – TTTGTAACTA + TAGTTACAAA
ENSMUSG00000058014_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000058014_CHOF:300-309 + TATGCATCTA – TAGATGCATA
ENSMUSG00000058014_CPOR Orthologue Cavia porcellus ENSMUSG00000058014_CPOR:708-717 + TGTGCATCTA – TAGATGCACA
ENSMUSG00000058014_DNOV Orthologue Dasypus novemcinctus scaffold_61181:1,952-1,961 + TATGCATCTA – TAGATGCATA
ENSMUSG00000058014_EEUR Orthologue Erinaceus europaeus ENSMUSG00000058014_EEUR:139-148 + TGTGCATCTA – TAGATGCACA
ENSMUSG00000058014_ETEL Orthologue Echinops telfairi scaffold_293626:79,857-79,866 – TATGCATATA + TATATGCATA
ENSMUSG00000058014_FRUB Orthologue Fugu rubripes chrUn:304,384,704-304,384,713 + TATGTATAGA – TCTATACATA
ENSMUSG00000058014_HSAP Orthologue Homo sapiens chr11:7,775,235-7,775,244 + TATGTATTTA – TAAATACATA
ENSMUSG00000058014_LAFR Orthologue Loxodonta africana scaffold_17479:62,029-62,038 + TATGTATATA – TATATACATA
ENSMUSG00000058014_MLUC Orthologue Myotis lucifugus ENSMUSG00000058014_MLUC:1,497-1,506 + TATGTATATA – TATATACATA
ENSMUSG00000058014_MMUL Orthologue Macaca mulatta SCAFFOLD105816:45,566-45,575 – TATGTATATA + TATATACATA
ENSMUSG00000058014_OCUN Orthologue Oryctolagus cuniculus scaffold_207842:14,468-14,477 + TATGCATCTA – TAGATGCATA
ENSMUSG00000058014_OGAR Orthologue Otolemur garnettii ENSMUSG00000058014_OGAR:597-606 + TATGTATCTA – TAGATACATA
ENSMUSG00000058014_PTRO Orthologue Pan troglodytes chr9:7,895,067-7,895,076 – TATGCATCTA + TAGATGCATA
ENSMUSG00000058014_SARA Orthologue Sorex araneus ENSMUSG00000058014_SARA:392-401 + TTTGCATCTA – TAGATGCAAA
ENSMUSG00000058014_SSCR Orthologue Sus scrofa ENSMUSG00000058014_SSCR:393-402 + TGTGTATCTA – TAGATACACA
ENSMUSG00000058014_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000058014_STRI:648-657 – TATATATATA + TATATATATA
ENSMUSG00000058014_TBEL Orthologue Tupaia belangeri ENSMUSG00000058014_TBEL:161-170 – TATGTATATA + TATATACATA
ENSMUSG00000058014_XTRO Orthologue Xenopus tropicalis scaffold_10:4,501,748-4,501,757 – TGTGTATTTA + TAAATACACA

Questions or comments: cisred@bcgsc.ca