FILTERS:
pvalue:0.1
Motif craMmus228187
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 craMmus228187
Discovery p-value 2.79E-03
Motif location chr3: 112,976,193-112,976,200 (-) (8 bp)
Search region location chr3: 112,974,669-112,977,055 (-) (2,387 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 21 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pongo pygmaeus, Pan troglodytes, 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.): FOXJ2(3.35E-04) ,    CUTL1(3.95E-04) ,    SRF(4.06E-04) ,    MRF-2(9.63E-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 TAAATATT AATATTTA
Position frequency matrix
1 2 3 4 5 6 7 8
A 0 19 21 19 0 21 0 0
C 0 2 0 1 0 0 1 6
G 0 0 0 1 0 0 5 0
T 21 0 0 0 21 0 15 15
T A A A T A T T
1 2 3 4 5 6 7 8
A 15 15 0 21 0 0 0 21
C 0 5 0 0 1 0 0 0
G 6 1 0 0 1 0 2 0
T 0 0 21 0 19 21 19 0
A A T A T T T 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
ENSMUSG00000070362 Target Mus musculus chr3:112,976,193-112,976,200 + TCAATATT – AATATTGA
ENSMUSG00000070362_CFAM Orthologue Canis familiaris chrUn:46,712,627-46,712,634 + TAAATAGT – ACTATTTA
ENSMUSG00000070362_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000070362_CHOF:325-332 – TAAATATC + GATATTTA
ENSMUSG00000070362_CJAC Orthologue Callithrix jacchus ENSMUSG00000070362_CJAC:368-375 – TAAGTATC + GATACTTA
ENSMUSG00000070362_CPOR Orthologue Cavia porcellus ENSMUSG00000070362_CPOR:73-80 – TCAATATT + AATATTGA
ENSMUSG00000070362_DNOV Orthologue Dasypus novemcinctus scaffold_140518:2,868-2,875 – TAAATATT + AATATTTA
ENSMUSG00000070362_ECAB Orthologue Equus caballus ENSMUSG00000070362_ECAB:354-361 – TAAATATT + AATATTTA
ENSMUSG00000070362_ETEL Orthologue Echinops telfairi scaffold_200667:3,258-3,265 – TAAATATT + AATATTTA
ENSMUSG00000070362_FRUB Orthologue Fugu rubripes chrUn:224,060,879-224,060,886 + TAAATATC – GATATTTA
ENSMUSG00000070362_GGAL Orthologue Gallus gallus chr8:11,424,643-11,424,650 + TAAATAGC – GCTATTTA
ENSMUSG00000070362_HSAP Orthologue Homo sapiens chr1:104,005,035-104,005,042 – TAAATAGT + ACTATTTA
ENSMUSG00000070362_LAFR Orthologue Loxodonta africana scaffold_61363:902-909 + TAAATATT – AATATTTA
ENSMUSG00000070362_MDOM Orthologue Monodelphis domestica scaffold_0:14,539,889-14,539,896 + TAAATATT – AATATTTA
ENSMUSG00000070362_MMUL Orthologue Macaca mulatta SCAFFOLD812:37,504-37,511 – TAAATATT + AATATTTA
ENSMUSG00000070362_OCUN Orthologue Oryctolagus cuniculus scaffold_155133:12,190-12,197 – TAAATACT + AGTATTTA
ENSMUSG00000070362_OGAR Orthologue Otolemur garnettii ENSMUSG00000070362_OGAR:262-269 + TAAATAGT – ACTATTTA
ENSMUSG00000070362_PPYG Orthologue Pongo pygmaeus ENSMUSG00000070362_PPYG:388-395 – TAAATATC + GATATTTA
ENSMUSG00000070362_PTRO Orthologue Pan troglodytes chr1:103,080,642-103,080,649 – TAAATAGT + ACTATTTA
ENSMUSG00000070362_SSCR Orthologue Sus scrofa ENSMUSG00000070362_SSCR:68-75 – TAACTATT + AATAGTTA
ENSMUSG00000070362_TBEL Orthologue Tupaia belangeri ENSMUSG00000070362_TBEL:135-142 – TAAATATC + GATATTTA
ENSMUSG00000070362_XTRO Orthologue Xenopus tropicalis scaffold_466:404,517-404,524 – TAAATATT + AATATTTA

Questions or comments: cisred@bcgsc.ca