FILTERS:
pvalue:0.1
Motif craMmus367849
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 craMmus367849
Discovery p-value 2.79E-03
Motif location chr2: 52,045,274-52,045,281 (+) (8 bp)
Search region location chr2: 52,043,621-52,045,623 (+) (2,003 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 19 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Equus caballus, Echinops telfairi, Felis catus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Ovis aries, Oryctolagus cuniculus, Pan troglodytes, 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 7 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (7 annot.): COMP1(1.56E-07) ,    POU2F1(1.33E-05) ,    POU2F1(1.50E-05) ,    OCA-B(2.20E-04) ,    POU2F1(2.46E-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 AATGCAAA TTTGCATT
Position frequency matrix
1 2 3 4 5 6 7 8
A 19 19 0 0 1 18 19 16
C 0 0 1 0 17 1 0 0
G 0 0 0 19 1 0 0 0
T 0 0 18 0 0 0 0 3
A A T G C A A A
1 2 3 4 5 6 7 8
A 3 0 0 0 0 18 0 0
C 0 0 0 1 19 0 0 0
G 0 0 1 17 0 1 0 0
T 16 19 18 1 0 0 19 19
T T T G C 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
ENSMUSG00000053475 Target Mus musculus chr2:52,045,274-52,045,281 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_BTAU Orthologue Bos taurus chr2:9,110,522-9,110,529 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_CFAM Orthologue Canis familiaris chr19:55,628,608-55,628,615 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000053475_CHOF:30-37 + AATGCCAT – ATGGCATT
ENSMUSG00000053475_CJAC Orthologue Callithrix jacchus ENSMUSG00000053475_CJAC:159-166 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_CPOR Orthologue Cavia porcellus ENSMUSG00000053475_CPOR:159-166 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_ECAB Orthologue Equus caballus ENSMUSG00000053475_ECAB:336-343 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_ETEL Orthologue Echinops telfairi scaffold_312380:5,357-5,364 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_FCAT Orthologue Felis catus ENSMUSG00000053475_FCAT:141-148 – AATGAAAA + TTTTCATT
ENSMUSG00000053475_HSAP Orthologue Homo sapiens chr2:152,039,477-152,039,484 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_LAFR Orthologue Loxodonta africana scaffold_75670:582-589 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_MDOM Orthologue Monodelphis domestica scaffold_2:42,394,505-42,394,512 + AACGCAAT – ATTGCGTT
ENSMUSG00000053475_MLUC Orthologue Myotis lucifugus ENSMUSG00000053475_MLUC:77-84 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_MMUL Orthologue Macaca mulatta SCAFFOLD106228:9,942-9,949 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_OARI Orthologue Ovis aries ENSMUSG00000053475_OARI:180-187 + AATGGAAT – ATTCCATT
ENSMUSG00000053475_OCUN Orthologue Oryctolagus cuniculus scaffold_213469:89,224-89,231 – AATGCAAA + TTTGCATT
ENSMUSG00000053475_PTRO Orthologue Pan troglodytes chr13:41,101,244-41,101,251 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_SARA Orthologue Sorex araneus ENSMUSG00000053475_SARA:156-163 + AATGCAAA – TTTGCATT
ENSMUSG00000053475_TBEL Orthologue Tupaia belangeri ENSMUSG00000053475_TBEL:152-159 + AATGCAAA – TTTGCATT

Questions or comments: cisred@bcgsc.ca