FILTERS:
pvalue:0.1
Motif craMmus295076
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 craMmus295076
Discovery p-value 2.79E-03
Motif location chr10: 129,181,052-129,181,063 (-) (12 bp)
Search region location chr10: 129,180,885-129,182,777 (-) (1,893 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 15 species: Mus musculus, Canis familiaris, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sus scrofa, 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.): POU1F1(5.90E-05) ,    IRF-7A(2.72E-04) ,    HNF-1alpha(4.30E-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 AAnAAAsAyATT AATrTwTTTnTT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 15 15 5 8 15 15 6 15 0 13 5 4
C 0 0 0 3 0 0 0 0 6 0 0 0
G 0 0 6 4 0 0 0 0 0 2 0 0
T 0 0 4 0 0 0 9 0 9 0 10 11
A A n r A A w A y A T T
1 2 3 4 5 6 7 8 9 10 11 12
A 11 10 0 9 0 9 0 0 0 4 0 0
C 0 0 2 0 0 0 0 0 4 6 0 0
G 0 0 0 6 0 0 0 0 3 0 0 0
T 4 5 13 0 15 6 15 15 8 5 15 15
A A T r T w T T y n 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
ENSMUSG00000058513 Target Mus musculus chr10:129,181,052-129,181,063 + AATGAATATAAT – ATTATATTCATT
ENSMUSG00000058513_CFAM Orthologue Canis familiaris chr27:3,010,354-3,010,365 – AAGAAAAATAAT + ATTATTTTTCTT
ENSMUSG00000058513_CPOR Orthologue Cavia porcellus ENSMUSG00000058513_CPOR:277-288 – AAACAAAATATA + TATATTTTGTTT
ENSMUSG00000058513_DNOV Orthologue Dasypus novemcinctus scaffold_93509:498-509 – AAGAAATACATT + AATGTATTTCTT
ENSMUSG00000058513_DRER Orthologue Danio rerio chr15:36,019,935-36,019,946 – AAAGAAAACATA + TATGTTTTCTTT
ENSMUSG00000058513_ETEL Orthologue Echinops telfairi scaffold_280670:12,293-12,304 + AAGAAATACATT – AATGTATTTCTT
ENSMUSG00000058513_HSAP Orthologue Homo sapiens chr12:54,043,503-54,043,514 + AAAGAATATGAT – ATCATATTCTTT
ENSMUSG00000058513_LAFR Orthologue Loxodonta africana scaffold_8008:36,152-36,163 – AAGAAATACATT + AATGTATTTCTT
ENSMUSG00000058513_MDOM Orthologue Monodelphis domestica scaffold_33:16,906,428-16,906,439 + AATCAAAATATA – TATATTTTGATT
ENSMUSG00000058513_MMUL Orthologue Macaca mulatta SCAFFOLD70084:83,523-83,534 – AAAGAATATGAT + ATCATATTCTTT
ENSMUSG00000058513_OCUN Orthologue Oryctolagus cuniculus scaffold_93908:1,255-1,266 + AAGAAATACATA – TATGTATTTCTT
ENSMUSG00000058513_PTRO Orthologue Pan troglodytes chr10:55,235,847-55,235,858 – AATAAAAATAAT + ATTATTTTTATT
ENSMUSG00000058513_RNOR Orthologue Rattus norvegicus chr7:7,662,574-7,662,585 – AAACAAAATATT + AATATTTTGTTT
ENSMUSG00000058513_SSCR Orthologue Sus scrofa ENSMUSG00000058513_SSCR:335-346 – AAGAAATACATT + AATGTATTTCTT
ENSMUSG00000058513_XTRO Orthologue Xenopus tropicalis scaffold_10:4,612,056-4,612,067 + AATAAATATATT – AATATATTTATT

Questions or comments: cisred@bcgsc.ca