FILTERS:
pvalue:0.1
Motif craMmus306576
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 craMmus306576
Discovery p-value 1.65E-03
Motif location chr3: 58,822,611-58,822,623 (-) (13 bp)
Search region location chr3: 58,820,974-58,822,910 (-) (1,937 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 8 species: Mus musculus, Bos taurus, Homo sapiens, Monodelphis domestica, Macaca mulatta, Pan troglodytes, Rattus norvegicus, Tetraodon nigroviridis
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: (3 annot.): Lhx3a(2.87E-04) ,    Nkx6-2(4.26E-04) ,    TBP(9.98E-04)
ORegAnno: (1 annot.): FoxA1(9.28E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence snAnnTAAAkTTT AAAmTTTAnnTnw
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12 13
A 3 3 6 1 0 0 8 8 8 1 0 0 0
C 0 1 0 1 2 0 0 0 0 0 0 0 0
G 1 1 1 3 3 0 0 0 0 4 0 0 0
T 4 3 1 3 3 8 0 0 0 3 8 8 8
w n A n n T A A A k T T T
1 2 3 4 5 6 7 8 9 10 11 12 13
A 8 8 8 3 0 0 0 8 3 3 1 3 4
C 0 0 0 4 0 0 0 0 3 3 1 1 1
G 0 0 0 0 0 0 0 0 2 1 0 1 0
T 0 0 0 1 8 8 8 0 0 1 6 3 3
A A A m T T T A n n T n w

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
ENSMUSG00000036432 Target Mus musculus chr3:58,822,611-58,822,623 + AAAGTTAAATTTT – AAAATTTAACTTT
ENSMUSG00000036432_BTAU Orthologue Bos taurus chr1:74,078,702-74,078,714 – AAGACTAAAGTTT + AAACTTTAGTCTT
ENSMUSG00000036432_HSAP Orthologue Homo sapiens chr3:151,965,819-151,965,831 – TTATGTAAAGTTT + AAACTTTACATAA
ENSMUSG00000036432_MDOM Orthologue Monodelphis domestica scaffold_28:22,545,252-22,545,264 – TGACTTAAAATTT + AAATTTTAAGTCA
ENSMUSG00000036432_MMUL Orthologue Macaca mulatta SCAFFOLD6819:9,390-9,402 – TTATGTAAAGTTT + AAACTTTACATAA
ENSMUSG00000036432_PTRO Orthologue Pan troglodytes chr2:155,160,672-155,160,684 – TTATGTAAAGTTT + AAACTTTACATAA
ENSMUSG00000036432_RNOR Orthologue Rattus norvegicus chr2:147,992,174-147,992,186 + AAAGTTAAATTTT – AAAATTTAACTTT
ENSMUSG00000036432_TNIG Orthologue Tetraodon nigroviridis Un_random:78,843,086-78,843,098 + GCTGCTAAATTTT – AAAATTTAGCAGC

Questions or comments: cisred@bcgsc.ca