FILTERS:
pvalue:0.1
Motif craMmus391135
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 craMmus391135
Discovery p-value 2.79E-03
Motif location chr2: 88,234,320-88,234,329 (+) (10 bp)
Search region location chr2: 88,233,252-88,235,164 (+) (1,913 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 18 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Danio rerio, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Homo sapiens, Loxodonta africana, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Spermophilus tridecemlineatus, Tupaia belangeri
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 7 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (7 annot.): FOXD3(3.07E-04) ,    HNF-3(4.96E-04) ,    aMEF-2(5.45E-04) ,    HNF-1alpha(5.98E-04) ,    AIRE(6.28E-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 TGwATTTmTT AAkAAATsCA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 6 3 8 18 0 1 0 11 0 1
C 0 0 0 0 0 0 0 7 0 0
G 0 15 0 0 0 0 0 0 0 0
T 12 0 10 0 18 17 18 0 18 17
T G w A T T T n T T
1 2 3 4 5 6 7 8 9 10
A 17 18 0 18 17 18 0 10 0 12
C 0 0 0 0 0 0 0 0 15 0
G 0 0 7 0 0 0 0 0 0 0
T 1 0 11 0 1 0 18 8 3 6
A A n A A A T w C 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
ENSMUSG00000056995 Target Mus musculus chr2:88,234,320-88,234,329 + AATATTTATT – AATAAATATT
ENSMUSG00000056995_CFAM Orthologue Canis familiaris chr18:43,240,173-43,240,182 + AGAATTTATT – AATAAATTCT
ENSMUSG00000056995_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000056995_CHOF:32-41 + TGTATTTATT – AATAAATACA
ENSMUSG00000056995_DNOV Orthologue Dasypus novemcinctus scaffold_241924:1,935-1,944 – AGAATTTATT + AATAAATTCT
ENSMUSG00000056995_DRER Orthologue Danio rerio chr15:35,899,402-35,899,411 – TATATTTATT + AATAAATATA
ENSMUSG00000056995_ECAB Orthologue Equus caballus ENSMUSG00000056995_ECAB:638-647 + TGTATTTCTT – AAGAAATACA
ENSMUSG00000056995_EEUR Orthologue Erinaceus europaeus ENSMUSG00000056995_EEUR:189-198 + TGAATTTATT – AATAAATTCA
ENSMUSG00000056995_ETEL Orthologue Echinops telfairi scaffold_7977:5,721-5,730 + AGAATTTATT – AATAAATTCT
ENSMUSG00000056995_FCAT Orthologue Felis catus ENSMUSG00000056995_FCAT:78-87 + TGAATTTATT – AATAAATTCA
ENSMUSG00000056995_HSAP Orthologue Homo sapiens chr11:55,162,207-55,162,216 + AGTATATATA – TATATATACT
ENSMUSG00000056995_LAFR Orthologue Loxodonta africana scaffold_1172:57,150-57,159 – TGAATTTATT + AATAAATTCA
ENSMUSG00000056995_MMUL Orthologue Macaca mulatta SCAFFOLD5079:110,798-110,807 + TGTATTTCTT – AAGAAATACA
ENSMUSG00000056995_OCUN Orthologue Oryctolagus cuniculus scaffold_126031:725-734 – TGTATTTCTT + AAGAAATACA
ENSMUSG00000056995_PTRO Orthologue Pan troglodytes chr9:56,064,092-56,064,101 + TGTATTTCTT – AAGAAATACA
ENSMUSG00000056995_RNOR Orthologue Rattus norvegicus chr3:71,985,413-71,985,422 + TAAATTTCTT – AAGAAATTTA
ENSMUSG00000056995_SSCR Orthologue Sus scrofa ENSMUSG00000056995_SSCR:361-370 + TGTATTTCTT – AAGAAATACA
ENSMUSG00000056995_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000056995_STRI:326-335 + TGTATTTCTT – AAGAAATACA
ENSMUSG00000056995_TBEL Orthologue Tupaia belangeri ENSMUSG00000056995_TBEL:562-571 + AGAATTTATT – AATAAATTCT

Questions or comments: cisred@bcgsc.ca