FILTERS:
pvalue:0.1
Motif craMmus167522
More information about this gene at Ensembl.org Go to UCSC
The contents of this page can be modified by changing your filter settings.
Currently, this page only shows information about a motif if it:
+ has a discovery p-value < 0.1
Filters based on species and motif discovery algorithms are not applied to the contents of this page.

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 craMmus167522
Discovery p-value 2.79E-03
Motif location chr8: 55,702,940-55,702,951 (+) (12 bp)
Search region location chr8: 55,702,295-55,704,017 (+) (1,723 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 23 species: Mus musculus, Bos taurus, Callithrix jacchus, Cavia porcellus, Erinaceus europaeus, Echinops telfairi, Felis catus, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Ornithorhynchus anatinus, Oryctolagus cuniculus, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, 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 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): aMEF-2(2.01E-04) ,    MEF-2A(3.50E-04) ,    POU3F2(4.13E-04) ,    HNF-1alpha(5.85E-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 ArAGATrTAkyT ArmTAyATCTyT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 19 10 21 0 23 1 11 0 23 0 0 0
C 0 0 0 2 0 0 0 0 0 0 9 0
G 4 13 2 21 0 0 12 0 0 9 0 0
T 0 0 0 0 0 22 0 23 0 14 14 23
A r A G A T r T A n n T
1 2 3 4 5 6 7 8 9 10 11 12
A 23 14 14 0 23 0 22 0 0 0 0 0
C 0 0 9 0 0 12 0 0 21 2 13 4
G 0 9 0 0 0 0 0 0 2 0 0 0
T 0 0 0 23 0 11 1 23 0 21 10 19
A n n T A y A T C T y 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
ENSMUSG00000038193 Target Mus musculus chr8:55,702,940-55,702,951 + AGAGATATATTT – AAATATATCTCT
ENSMUSG00000038193_BTAU Orthologue Bos taurus chr8:3,385,610-3,385,621 – GGAGATGTATTT + AAATACATCTCC
ENSMUSG00000038193_CJAC Orthologue Callithrix jacchus ENSMUSG00000038193_CJAC:638-649 + AAAGATGTAGCT – AGCTACATCTTT
ENSMUSG00000038193_CPOR Orthologue Cavia porcellus ENSMUSG00000038193_CPOR:840-851 + GGAGAAATATTT – AAATATTTCTCC
ENSMUSG00000038193_EEUR Orthologue Erinaceus europaeus ENSMUSG00000038193_EEUR:1,128-1,139 + AAAGATGTAGCT – AGCTACATCTTT
ENSMUSG00000038193_ETEL Orthologue Echinops telfairi scaffold_313264:87,763-87,774 – AGAGATATATTT + AAATATATCTCT
ENSMUSG00000038193_FCAT Orthologue Felis catus ENSMUSG00000038193_FCAT:229-240 + AGAGATATATTT – AAATATATCTCT
ENSMUSG00000038193_GGAL Orthologue Gallus gallus chrUn:51,154,457-51,154,468 + AAACATGTAGCT – AGCTACATGTTT
ENSMUSG00000038193_HSAP Orthologue Homo sapiens chr4:174,827,027-174,827,038 – AGAGATATATTT + AAATATATCTCT
ENSMUSG00000038193_LAFR Orthologue Loxodonta africana scaffold_1280:35,167-35,178 – AGAGATGTATTT + AAATACATCTCT
ENSMUSG00000038193_MDOM Orthologue Monodelphis domestica scaffold_9:51,519,371-51,519,382 – AGAGATATATTT + AAATATATCTCT
ENSMUSG00000038193_MLUC Orthologue Myotis lucifugus ENSMUSG00000038193_MLUC:282-293 + AGAGATATATTT – AAATATATCTCT
ENSMUSG00000038193_MMUL Orthologue Macaca mulatta SCAFFOLD30378:58,932-58,943 + AGAGATATATTT – AAATATATCTCT
ENSMUSG00000038193_OANA Orthologue Ornithorhynchus anatinus ENSMUSG00000038193_OANA:136-147 + GGAGATGTATTT – AAATACATCTCC
ENSMUSG00000038193_OCUN Orthologue Oryctolagus cuniculus scaffold_204744:73,528-73,539 + AGAGATATATTT – AAATATATCTCT
ENSMUSG00000038193_PCAP Orthologue Procavia capensis ENSMUSG00000038193_PCAP:1,119-1,130 + AAAGATGTAGCT – AGCTACATCTTT
ENSMUSG00000038193_PPYG Orthologue Pongo pygmaeus ENSMUSG00000038193_PPYG:1,087-1,098 + AAAGATGTAGCT – AGCTACATCTTT
ENSMUSG00000038193_PTRO Orthologue Pan troglodytes chr3:192,808,934-192,808,945 – AGAGATATATTT + AAATATATCTCT
ENSMUSG00000038193_RNOR Orthologue Rattus norvegicus chr16:36,328,130-36,328,141 – GAGGATATATTT + AAATATATCCTC
ENSMUSG00000038193_SARA Orthologue Sorex araneus ENSMUSG00000038193_SARA:884-895 + AAGCATGTAGCT – AGCTACATGCTT
ENSMUSG00000038193_SSCR Orthologue Sus scrofa ENSMUSG00000038193_SSCR:813-824 + AAAGATGTAGCT – AGCTACATCTTT
ENSMUSG00000038193_TBEL Orthologue Tupaia belangeri ENSMUSG00000038193_TBEL:1,260-1,271 + AAAGATGTAGCT – AGCTACATCTTT
ENSMUSG00000038193_XTRO Orthologue Xenopus tropicalis scaffold_25:1,316,351-1,316,362 + AAAGATGTAGCT – AGCTACATCTTT

Questions or comments: cisred@bcgsc.ca