FILTERS:
pvalue:0.1
Motif craMmus199133
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 craMmus199133
Discovery p-value 2.79E-03
Motif location chr10: 128,662,758-128,662,767 (-) (10 bp)
Search region location chr10: 128,662,551-128,664,522 (-) (1,972 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Felis catus, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Ovis aries, Oryctolagus cuniculus, Otolemur garnettii, Rattus norvegicus, Sorex araneus, Tupaia belangeri
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 2 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): POU1F1(2.61E-04) ,    HOXA5(3.02E-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 TAysGAATTT AAATTCwrTA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 5 16 0 12 6 20 20 1 0 4
C 1 0 11 0 0 0 0 0 0 3
G 0 0 0 0 14 0 0 0 0 0
T 14 4 9 8 0 0 0 19 20 13
T A y w G A A T T T
1 2 3 4 5 6 7 8 9 10
A 13 20 19 0 0 0 8 9 4 14
C 0 0 0 0 0 14 0 0 0 0
G 3 0 0 0 0 0 0 11 0 1
T 4 0 1 20 20 6 12 0 16 5
A A A T T C w r T 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
ENSMUSG00000061367 Target Mus musculus chr10:128,662,758-128,662,767 + TACTGAATTA – TAATTCAGTA
ENSMUSG00000061367_CFAM Orthologue Canis familiaris chr10:19,145,549-19,145,558 + TTTAGAATTT – AAATTCTAAA
ENSMUSG00000061367_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000061367_CHOF:277-286 + TACAAAATTT – AAATTTTGTA
ENSMUSG00000061367_CPOR Orthologue Cavia porcellus ENSMUSG00000061367_CPOR:464-473 + TACAAAATTT – AAATTTTGTA
ENSMUSG00000061367_DNOV Orthologue Dasypus novemcinctus scaffold_28870:6,375-6,384 + TACAGAATTA – TAATTCTGTA
ENSMUSG00000061367_ECAB Orthologue Equus caballus ENSMUSG00000061367_ECAB:278-287 + TACAGAATTT – AAATTCTGTA
ENSMUSG00000061367_FCAT Orthologue Felis catus ENSMUSG00000061367_FCAT:262-271 + TACAGAATTT – AAATTCTGTA
ENSMUSG00000061367_FRUB Orthologue Fugu rubripes chrUn:265,469,164-265,469,173 – TATTGAATTA + TAATTCAATA
ENSMUSG00000061367_GGAL Orthologue Gallus gallus chr5:2,410,038-2,410,047 – ATTTGAATTT + AAATTCAAAT
ENSMUSG00000061367_HSAP Orthologue Homo sapiens chr12:54,105,583-54,105,592 – TTTAAAATTT + AAATTTTAAA
ENSMUSG00000061367_LAFR Orthologue Loxodonta africana scaffold_23167:34,311-34,320 – TACAAAATTT + AAATTTTGTA
ENSMUSG00000061367_MDOM Orthologue Monodelphis domestica scaffold_33:16,187,913-16,187,922 + CATAAAATTT – AAATTTTATG
ENSMUSG00000061367_MLUC Orthologue Myotis lucifugus ENSMUSG00000061367_MLUC:14-23 + TTTTAAAATC – GATTTTAAAA
ENSMUSG00000061367_MMUL Orthologue Macaca mulatta SCAFFOLD70084:2,926-2,935 – TATAGAATTC + GAATTCTATA
ENSMUSG00000061367_OARI Orthologue Ovis aries ENSMUSG00000061367_OARI:274-283 – AACTGAATTC + GAATTCAGTT
ENSMUSG00000061367_OCUN Orthologue Oryctolagus cuniculus scaffold_89789:4,388-4,397 + TACAGAATTT – AAATTCTGTA
ENSMUSG00000061367_OGAR Orthologue Otolemur garnettii ENSMUSG00000061367_OGAR:114-123 – TACTGAATTT + AAATTCAGTA
ENSMUSG00000061367_RNOR Orthologue Rattus norvegicus chr7:4,932,453-4,932,462 + AACTGAATTA – TAATTCAGTT
ENSMUSG00000061367_SARA Orthologue Sorex araneus ENSMUSG00000061367_SARA:219-228 + AATAGAATTT – AAATTCTATT
ENSMUSG00000061367_TBEL Orthologue Tupaia belangeri ENSMUSG00000061367_TBEL:285-294 + AATTGAATTT – AAATTCAATT

Questions or comments: cisred@bcgsc.ca