FILTERS:
pvalue:0.1
Motif craMmus67488
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 craMmus67488
Discovery p-value 2.79E-03
Motif location chr10: 23,827,321-23,827,330 (+) (10 bp)
Search region location chr10: 23,825,927-23,827,626 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 16 species: Mus musculus, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pan troglodytes, Rattus norvegicus, Tetraodon nigroviridis, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 8 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (7 annot.): Lhx3a(8.01E-05) ,    aMEF-2(2.01E-04) ,    MEF-2A(2.73E-04) ,    HNF-6(4.70E-04) ,    HNF-1alpha(6.36E-04) ...
ORegAnno: (1 annot.): FoxA1(4.08E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AAAwTwAATT AATTsAsTTT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 12 16 13 6 0 6 15 16 0 0
C 0 0 0 0 0 1 1 0 0 0
G 0 0 0 0 1 0 0 0 0 0
T 4 0 3 10 15 9 0 0 16 16
A A A n T w A A T T
1 2 3 4 5 6 7 8 9 10
A 16 16 0 0 9 15 10 3 0 4
C 0 0 0 0 0 1 0 0 0 0
G 0 0 0 1 1 0 0 0 0 0
T 0 0 16 15 6 0 6 13 16 12
A A T T w A n T T 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
ENSMUSG00000050804 Target Mus musculus chr10:23,827,321-23,827,330 + AAAATTAATT – AATTAATTTT
ENSMUSG00000050804_CPOR Orthologue Cavia porcellus ENSMUSG00000050804_CPOR:373-382 + TAAATAAATT – AATTTATTTA
ENSMUSG00000050804_DNOV Orthologue Dasypus novemcinctus scaffold_267991:1,476-1,485 – TAATGTAATT + AATTACATTA
ENSMUSG00000050804_DRER Orthologue Danio rerio chr20:52,661,030-52,661,039 – AAATTTAATT + AATTAAATTT
ENSMUSG00000050804_FRUB Orthologue Fugu rubripes chrUn:286,052,511-286,052,520 – AATTTCAATT + AATTGAAATT
ENSMUSG00000050804_GGAL Orthologue Gallus gallus chrUn:106,075,787-106,075,796 – AAAATAAATT + AATTTATTTT
ENSMUSG00000050804_HSAP Orthologue Homo sapiens chr6:132,915,360-132,915,369 – AAATTAAATT + AATTTAATTT
ENSMUSG00000050804_LAFR Orthologue Loxodonta africana scaffold_36465:4,522-4,531 – AAATTACATT + AATGTAATTT
ENSMUSG00000050804_MDOM Orthologue Monodelphis domestica scaffold_0:78,780,852-78,780,861 – TATATAAATT + AATTTATATA
ENSMUSG00000050804_MMUL Orthologue Macaca mulatta SCAFFOLD40010:84,930-84,939 – AAATTTAATT + AATTAAATTT
ENSMUSG00000050804_OCUN Orthologue Oryctolagus cuniculus scaffold_110117:8,242-8,251 + AATTTTAATT – AATTAAAATT
ENSMUSG00000050804_OGAR Orthologue Otolemur garnettii ENSMUSG00000050804_OGAR:8-17 – AAATTTAATT + AATTAAATTT
ENSMUSG00000050804_PTRO Orthologue Pan troglodytes chr5:135,559,969-135,559,978 – AAATTAAATT + AATTTAATTT
ENSMUSG00000050804_RNOR Orthologue Rattus norvegicus chr1:21,861,878-21,861,887 – AAAATTAATT + AATTAATTTT
ENSMUSG00000050804_TNIG Orthologue Tetraodon nigroviridis Un_random:105,531,528-105,531,537 + AAATTTAATT – AATTAAATTT
ENSMUSG00000050804_XTRO Orthologue Xenopus tropicalis scaffold_481:48,199-48,208 + TAAATTAATT – AATTAATTTA

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