FILTERS:
pvalue:0.1
Motif craMmus53489
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 craMmus53489
Discovery p-value 2.79E-03
Motif location chr7: 101,033,034-101,033,043 (-) (10 bp)
Search region location chr7: 101,032,205-101,033,904 (-) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Felis catus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Papio anubis, Procavia capensis, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus
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.): FOXP3(2.91E-04) ,    MRF-2(3.52E-04) ,    Nkx6-2(9.09E-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 AGTAGTACAT ATGTACTACT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 18 3 0 19 0 2 20 0 19 3
C 0 0 0 0 1 0 0 20 0 0
G 0 17 0 1 16 0 0 0 0 0
T 2 0 20 0 3 18 0 0 1 17
A G T A G T A C A T
1 2 3 4 5 6 7 8 9 10
A 17 1 0 0 18 3 0 20 0 2
C 0 0 0 0 0 16 1 0 17 0
G 0 0 20 0 0 1 0 0 0 0
T 3 19 0 20 2 0 19 0 3 18
A T G T A C T A C 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
ENSMUSG00000060856 Target Mus musculus chr7:101,033,034-101,033,043 + TGTATTACAA – TTGTAATACA
ENSMUSG00000060856_CFAM Orthologue Canis familiaris chr21:32,240,318-32,240,327 + AGTAGTACAT – ATGTACTACT
ENSMUSG00000060856_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000060856_CHOF:676-685 – AGTAGTACAT + ATGTACTACT
ENSMUSG00000060856_DNOV Orthologue Dasypus novemcinctus scaffold_23545:11,640-11,649 – AGTAGTACAT + ATGTACTACT
ENSMUSG00000060856_ECAB Orthologue Equus caballus ENSMUSG00000060856_ECAB:9-18 + AATATTACAA – TTGTAATATT
ENSMUSG00000060856_ETEL Orthologue Echinops telfairi scaffold_320604:152,429-152,438 + AGTAGTACAT – ATGTACTACT
ENSMUSG00000060856_FCAT Orthologue Felis catus ENSMUSG00000060856_FCAT:308-317 – AGTAGTACAT + ATGTACTACT
ENSMUSG00000060856_HSAP Orthologue Homo sapiens chr11:5,819,514-5,819,523 + AGTAGTACAT – ATGTACTACT
ENSMUSG00000060856_LAFR Orthologue Loxodonta africana scaffold_209343:385-394 – AATAGTACAT + ATGTACTATT
ENSMUSG00000060856_MDOM Orthologue Monodelphis domestica scaffold_111:2,893,377-2,893,386 + AATAGAACAT – ATGTTCTATT
ENSMUSG00000060856_MLUC Orthologue Myotis lucifugus ENSMUSG00000060856_MLUC:567-576 – AGTAGTACAT + ATGTACTACT
ENSMUSG00000060856_MMUL Orthologue Macaca mulatta SCAFFOLD20367:42,673-42,682 + AGTAGTACAT – ATGTACTACT
ENSMUSG00000060856_OCUN Orthologue Oryctolagus cuniculus scaffold_144820:3,803-3,812 – TGTATTACTT + AAGTAATACA
ENSMUSG00000060856_OGAR Orthologue Otolemur garnettii ENSMUSG00000060856_OGAR:524-533 – AGTAGTACAT + ATGTACTACT
ENSMUSG00000060856_PANU Orthologue Papio anubis ENSMUSG00000060856_PANU:367-376 – AGTGCAACAA + TTGTTGCACT
ENSMUSG00000060856_PCAP Orthologue Procavia capensis ENSMUSG00000060856_PCAP:354-363 – AGTAGTACAT + ATGTACTACT
ENSMUSG00000060856_PTRO Orthologue Pan troglodytes chr9:5,955,347-5,955,356 + AGTAGTACAT – ATGTACTACT
ENSMUSG00000060856_RNOR Orthologue Rattus norvegicus chr1:162,835,747-162,835,756 + AGTAGTACAT – ATGTACTACT
ENSMUSG00000060856_SARA Orthologue Sorex araneus ENSMUSG00000060856_SARA:376-385 – AGTAGTACAT + ATGTACTACT
ENSMUSG00000060856_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000060856_STRI:409-418 – AGTAGTACAT + ATGTACTACT

Questions or comments: cisred@bcgsc.ca