FILTERS:
pvalue:0.1
Motif craMmus295838
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 craMmus295838
Discovery p-value 2.79E-03
Motif location chr10: 129,235,786-129,235,794 (-) (9 bp)
Search region location chr10: 129,233,910-129,236,089 (-) (2,180 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 15 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, 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.): IRF-1(3.91E-04) ,    LUN-1(7.88E-04) ,    S8(8.16E-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 TTTTCATTn nAATGAAAA
Position frequency matrix
1 2 3 4 5 6 7 8 9
A 4 2 0 0 0 15 0 0 5
C 0 1 0 0 15 0 0 0 4
G 2 3 0 0 0 0 0 0 3
T 9 9 15 15 0 0 15 15 3
w k T T C A T T n
1 2 3 4 5 6 7 8 9
A 3 15 15 0 0 15 15 9 9
C 3 0 0 0 0 0 0 3 2
G 4 0 0 0 15 0 0 1 0
T 5 0 0 15 0 0 0 2 4
n A A T G A A m w

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
ENSMUSG00000060089 Target Mus musculus chr10:129,235,786-129,235,794 + GTTTCATTA – TAATGAAAC
ENSMUSG00000060089_BTAU Orthologue Bos taurus chr5:35,273,653-35,273,661 – GCTTCATTG + CAATGAAGC
ENSMUSG00000060089_CFAM Orthologue Canis familiaris chr27:3,058,193-3,058,201 – TGTTCATTC + GAATGAACA
ENSMUSG00000060089_DNOV Orthologue Dasypus novemcinctus scaffold_88451:6,699-6,707 + TTTTCATTC – GAATGAAAA
ENSMUSG00000060089_DRER Orthologue Danio rerio chr15:36,011,566-36,011,574 – AGTTCATTC + GAATGAACT
ENSMUSG00000060089_ETEL Orthologue Echinops telfairi scaffold_280670:1,849-1,857 – TGTTCATTT + AAATGAACA
ENSMUSG00000060089_GGAL Orthologue Gallus gallus chr5:2,409,380-2,409,388 + AATTCATTG – CAATGAATT
ENSMUSG00000060089_HSAP Orthologue Homo sapiens chr12:53,962,542-53,962,550 – TTTTCATTA + TAATGAAAA
ENSMUSG00000060089_LAFR Orthologue Loxodonta africana scaffold_8008:35,909-35,917 – TTTTCATTC + GAATGAAAA
ENSMUSG00000060089_MLUC Orthologue Myotis lucifugus ENSMUSG00000060089_MLUC:774-782 – TATTCATTT + AAATGAATA
ENSMUSG00000060089_MMUL Orthologue Macaca mulatta SCAFFOLD70084:150,616-150,624 + TTTTCATTA – TAATGAAAA
ENSMUSG00000060089_OCUN Orthologue Oryctolagus cuniculus scaffold_93908:1,427-1,435 + TTTTCATTT – AAATGAAAA
ENSMUSG00000060089_PTRO Orthologue Pan troglodytes chr10:55,222,183-55,222,191 – TTTTCATTA + TAATGAAAA
ENSMUSG00000060089_RNOR Orthologue Rattus norvegicus chr7:7,080,518-7,080,526 + ATTTCATTA – TAATGAAAT
ENSMUSG00000060089_XTRO Orthologue Xenopus tropicalis scaffold_10:4,497,800-4,497,808 – ATTTCATTG + CAATGAAAT

Questions or comments: cisred@bcgsc.ca