FILTERS:
pvalue:0.1
Motif craMmus307028
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 craMmus307028
Discovery p-value 2.79E-03
Motif location chr12: 39,319,240-39,319,248 (-) (9 bp)
Search region location chr12: 39,318,395-39,320,181 (-) (1,787 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 22 species: Mus musculus, Bos taurus, Canis familiaris, Cavia porcellus, Dasypus novemcinctus, Echinops telfairi, Felis catus, Gallus gallus, Homo sapiens, Monodelphis domestica, Macaca mulatta, Nomascus leucogenys, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, 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 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (5 annot.): aMEF-2(2.01E-04) ,    MEF-2A(3.50E-04) ,    IRF-1(5.70E-04) ,    AFP1(6.61E-04) ,    aMEF-2(7.11E-04)
ORegAnno: (1 annot.): FoxA1(2.70E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence TTTATTTGT ACAAATAAA
Position frequency matrix
1 2 3 4 5 6 7 8 9
A 0 0 0 22 0 0 4 0 5
C 0 0 0 0 0 0 0 4 1
G 0 0 0 0 0 0 2 15 1
T 22 22 22 0 22 22 16 3 15
T T T A T T T G T
1 2 3 4 5 6 7 8 9
A 15 3 16 22 22 0 22 22 22
C 1 15 2 0 0 0 0 0 0
G 1 4 0 0 0 0 0 0 0
T 5 0 4 0 0 22 0 0 0
A C A A A T A A 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
ENSMUSG00000036295 Target Mus musculus chr12:39,319,240-39,319,248 + TTTATTTTT – AAAAATAAA
ENSMUSG00000036295_BTAU Orthologue Bos taurus chr4:29,799,868-29,799,876 – TTTATTTGT + ACAAATAAA
ENSMUSG00000036295_CFAM Orthologue Canis familiaris chr14:53,853,776-53,853,784 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_CPOR Orthologue Cavia porcellus ENSMUSG00000036295_CPOR:241-249 + TTTATTTTA – TAAAATAAA
ENSMUSG00000036295_DNOV Orthologue Dasypus novemcinctus scaffold_62025:36,414-36,422 – TTTATTGCA + TGCAATAAA
ENSMUSG00000036295_ETEL Orthologue Echinops telfairi scaffold_324708:114,867-114,875 + TTTATTACT – AGTAATAAA
ENSMUSG00000036295_FCAT Orthologue Felis catus ENSMUSG00000036295_FCAT:66-74 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_GGAL Orthologue Gallus gallus chr1:24,480,900-24,480,908 – TTTATTACA + TGTAATAAA
ENSMUSG00000036295_HSAP Orthologue Homo sapiens chr7:110,324,462-110,324,470 + TTTATTACA – TGTAATAAA
ENSMUSG00000036295_MDOM Orthologue Monodelphis domestica scaffold_22:39,763,142-39,763,150 – TTTATTTGT + ACAAATAAA
ENSMUSG00000036295_MMUL Orthologue Macaca mulatta SCAFFOLD55349:24,626-24,634 – TTTATTTGT + ACAAATAAA
ENSMUSG00000036295_NLEU Orthologue Nomascus leucogenys ENSMUSG00000036295_NLEU:66-74 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_OCUN Orthologue Oryctolagus cuniculus scaffold_184214:8,538-8,546 – TTTATTGGG + CCCAATAAA
ENSMUSG00000036295_OGAR Orthologue Otolemur garnettii ENSMUSG00000036295_OGAR:109-117 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_PCAP Orthologue Procavia capensis ENSMUSG00000036295_PCAP:4-12 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_PPYG Orthologue Pongo pygmaeus ENSMUSG00000036295_PPYG:135-143 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_PTRO Orthologue Pan troglodytes chr6:112,277,100-112,277,108 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_RNOR Orthologue Rattus norvegicus chr6:60,780,946-60,780,954 – TTTATTATA + TATAATAAA
ENSMUSG00000036295_SSCR Orthologue Sus scrofa ENSMUSG00000036295_SSCR:63-71 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000036295_STRI:55-63 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_TBEL Orthologue Tupaia belangeri ENSMUSG00000036295_TBEL:103-111 + TTTATTTGT – ACAAATAAA
ENSMUSG00000036295_XTRO Orthologue Xenopus tropicalis scaffold_66:86,502-86,510 – TTTATTTGC + GCAAATAAA

Questions or comments: cisred@bcgsc.ca