FILTERS:
pvalue:0.1
Motif craMmus88793
More information about this gene at Ensembl.org Go to UCSC
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+ has a discovery p-value < 0.1
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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 craMmus88793
Discovery p-value 1.95E-02
Motif location chr15: 39,117,295-39,117,300 (+) (6 bp)
Search region location chr15: 39,116,699-39,118,582 (+) (1,884 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 5 species: Mus musculus, Homo sapiens, Macaca mulatta, Pan troglodytes, Rattus norvegicus
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.): Nkx3-1(8.28E-05) ,    Chx10(3.95E-04) ,    Nkx2-5(4.52E-04) ,    Lhx3a(4.76E-04) ,    Pax-6(8.53E-04) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 No annotation-based modules contain this motif.
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence TTAATT AATTAA
Position frequency matrix
1 2 3 4 5 6
A 0 0 5 5 0 0
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 5 5 0 0 5 5
T T A A T T
1 2 3 4 5 6
A 5 5 0 0 5 5
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 0 0 5 5 0 0
A A T T 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
ENSMUSG00000022300 Target Mus musculus chr15:39,117,295-39,117,300 + TTAATT – AATTAA
ENSMUSG00000022300_HSAP Orthologue Homo sapiens chr8:104,495,354-104,495,359 – TTAATT + AATTAA
ENSMUSG00000022300_MMUL Orthologue Macaca mulatta SCAFFOLD115030:199,894-199,899 + TTAATT – AATTAA
ENSMUSG00000022300_PTRO Orthologue Pan troglodytes chr7:106,889,736-106,889,741 – TTAATT + AATTAA
ENSMUSG00000022300_RNOR Orthologue Rattus norvegicus chr7:74,688,265-74,688,270 – TTAATT + AATTAA

Questions or comments: cisred@bcgsc.ca