FILTERS:
pvalue:0.1
Motif craMmus62734
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 craMmus62734
Discovery p-value 2.79E-03
Motif location chr10: 129,204,172-129,204,182 (-) (11 bp)
Search region location chr10: 129,202,407-129,204,335 (-) (1,929 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 14 species: Mus musculus, Canis familiaris, Danio rerio, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, 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 5 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (5 annot.): POU3F1(1.85E-04) ,    POU2F1(4.71E-04) ,    FOXP1a(5.70E-04) ,    aMEF-2(7.44E-04) ,    MEF-2A(8.23E-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 sTsTkmAATAs wTATTkmAwAw
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11
A 5 0 5 0 1 6 11 14 0 14 6
C 0 0 0 0 0 5 3 0 0 0 0
G 0 0 0 1 6 0 0 0 0 0 2
T 9 14 9 13 7 3 0 0 14 0 6
n T n T k m A A T A w
1 2 3 4 5 6 7 8 9 10 11
A 6 0 14 0 0 3 7 13 9 14 9
C 2 0 0 0 0 0 6 1 0 0 0
G 0 0 0 0 3 5 0 0 0 0 0
T 6 14 0 14 11 6 1 0 5 0 5
w T A T T k m A n A n

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
ENSMUSG00000046041 Target Mus musculus chr10:129,204,172-129,204,182 + ATTTTAAATAA – TTATTTAAAAT
ENSMUSG00000046041_CFAM Orthologue Canis familiaris chr27:3,026,261-3,026,271 – TTTTAACATAG + CTATGTTAAAA
ENSMUSG00000046041_DRER Orthologue Danio rerio chr15:35,899,569-35,899,579 – TTATTCAATAT + ATATTGAATAA
ENSMUSG00000046041_ETEL Orthologue Echinops telfairi scaffold_280670:1,543-1,553 – TTATGCAATAT + ATATTGCATAA
ENSMUSG00000046041_GGAL Orthologue Gallus gallus chr5:2,401,476-2,401,486 – TTTTGTAATAA + TTATTACAAAA
ENSMUSG00000046041_HSAP Orthologue Homo sapiens chr12:53,991,412-53,991,422 + TTAGGTAATAA – TTATTACCTAA
ENSMUSG00000046041_LAFR Orthologue Loxodonta africana scaffold_20643:16,716-16,726 + ATATTACATAT – ATATGTAATAT
ENSMUSG00000046041_MDOM Orthologue Monodelphis domestica scaffold_33:16,969,107-16,969,117 – ATATGCAATAA + TTATTGCATAT
ENSMUSG00000046041_MMUL Orthologue Macaca mulatta SCAFFOLD70084:129,066-129,076 – TTTTTACATAA + TTATGTAAAAA
ENSMUSG00000046041_OCUN Orthologue Oryctolagus cuniculus scaffold_213985:2,680-2,690 + TTTTTAAATAA – TTATTTAAAAA
ENSMUSG00000046041_PTRO Orthologue Pan troglodytes chr10:55,251,771-55,251,781 – TTTTGTAATAT + ATATTACAAAA
ENSMUSG00000046041_RNOR Orthologue Rattus norvegicus chr7:7,040,174-7,040,184 – ATTTTAAATAT + ATATTTAAAAT
ENSMUSG00000046041_TNIG Orthologue Tetraodon nigroviridis chr16:4,604,100-4,604,110 + TTTTGCAATAT – ATATTGCAAAA
ENSMUSG00000046041_XTRO Orthologue Xenopus tropicalis scaffold_10:4,578,576-4,578,586 + ATTTTCAATAG – CTATTGAAAAT

Questions or comments: cisred@bcgsc.ca