FILTERS:
pvalue:0.1
Motif craMmus342916
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 craMmus342916
Discovery p-value 2.79E-03
Motif location chr2: 87,700,830-87,700,839 (+) (10 bp)
Search region location chr2: 87,699,393-87,701,092 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 19 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Felis catus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Rattus norvegicus, Sus scrofa, Tupaia belangeri, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (3 annot.): POU3F2(2.88E-05) ,    S8(2.10E-04) ,    HOXA5(7.05E-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 AATnAGAATG CATTCTnATT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 19 17 0 7 18 4 19 17 0 0
C 0 0 0 6 1 0 0 0 0 1
G 0 0 4 0 0 15 0 0 0 18
T 0 2 15 6 0 0 0 2 19 0
A A T n A G A A T G
1 2 3 4 5 6 7 8 9 10
A 0 19 2 0 0 0 6 15 2 0
C 18 0 0 0 15 0 0 4 0 0
G 1 0 0 0 0 1 6 0 0 0
T 0 0 17 19 4 18 7 0 17 19
C A T T C T n A 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
ENSMUSG00000047039 Target Mus musculus chr2:87,700,830-87,700,839 + ATTAAGAATG – CATTCTTAAT
ENSMUSG00000047039_BTAU Orthologue Bos taurus chr1:22,333,777-22,333,786 + AATTAGAATC – GATTCTAATT
ENSMUSG00000047039_CFAM Orthologue Canis familiaris chr18:43,080,510-43,080,519 + AAGAAGAATG – CATTCTTCTT
ENSMUSG00000047039_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000047039_CHOF:328-337 + AATTAGAATG – CATTCTAATT
ENSMUSG00000047039_DNOV Orthologue Dasypus novemcinctus scaffold_18954:3,440-3,449 – AAGAAGAATG + CATTCTTCTT
ENSMUSG00000047039_DRER Orthologue Danio rerio chr10:33,662,887-33,662,896 + AATAAAAATG – CATTTTTATT
ENSMUSG00000047039_EEUR Orthologue Erinaceus europaeus ENSMUSG00000047039_EEUR:241-250 – AATTAGAATG + CATTCTAATT
ENSMUSG00000047039_FCAT Orthologue Felis catus ENSMUSG00000047039_FCAT:214-223 – AATAAGAATG + CATTCTTATT
ENSMUSG00000047039_HSAP Orthologue Homo sapiens chr11:55,438,482-55,438,491 – AATCAGAATG + CATTCTGATT
ENSMUSG00000047039_LAFR Orthologue Loxodonta africana scaffold_1215:49,133-49,142 + AATTAGAATG – CATTCTAATT
ENSMUSG00000047039_MDOM Orthologue Monodelphis domestica scaffold_33:16,679,377-16,679,386 – AATCAAATTG + CAATTTGATT
ENSMUSG00000047039_MMUL Orthologue Macaca mulatta SCAFFOLD115116:157,409-157,418 + AATCAGAATG – CATTCTGATT
ENSMUSG00000047039_OCUN Orthologue Oryctolagus cuniculus scaffold_108611:596-605 + AAGAAGAATG – CATTCTTCTT
ENSMUSG00000047039_PCAP Orthologue Procavia capensis ENSMUSG00000047039_PCAP:456-465 + AATCAGAATG – CATTCTGATT
ENSMUSG00000047039_PTRO Orthologue Pan troglodytes 9_random:27,081,304-27,081,313 – AATCAGAATG + CATTCTGATT
ENSMUSG00000047039_RNOR Orthologue Rattus norvegicus chr3:71,559,538-71,559,547 – AATTAAATTG + CAATTTAATT
ENSMUSG00000047039_SSCR Orthologue Sus scrofa ENSMUSG00000047039_SSCR:328-337 + AATTCGAATG – CATTCGAATT
ENSMUSG00000047039_TBEL Orthologue Tupaia belangeri ENSMUSG00000047039_TBEL:115-124 + AAGAAGAATG – CATTCTTCTT
ENSMUSG00000047039_XTRO Orthologue Xenopus tropicalis scaffold_10:4,060,881-4,060,890 + ATTCAAAATG – CATTTTGAAT

Questions or comments: cisred@bcgsc.ca