FILTERS:
pvalue:0.1
Motif craMmus400448
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 craMmus400448
Discovery p-value 2.79E-03
Motif location chr2: 87,300,526-87,300,535 (+) (10 bp)
Search region location chr2: 87,299,301-87,301,082 (+) (1,782 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 18 species: Mus musculus, Bos taurus, Canis familiaris, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Spermophilus tridecemlineatus, Tetraodon nigroviridis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 2 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): POU3F1(1.72E-04) ,    POU2F1(2.25E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
82 (IRF-7A__POU2F1)     136 (HNF-6__POU3F1)     366 (HNF-3__POU3F1)     375 (HNF-3__POU2F1)     393 (CUTL1__POU2F1)     433 (Nkx6-2__POU2F1)     438 (HOXA5__POU2F1)     522 (POU1F1__POU2F1)     533 (POU1F1__POU3F1)     560 (FOXD3__POU3F1)     646 (POU2F1__POU3F1)     759 (HNF-6__POU2F1)     784 (IRF-7A__POU3F1)     800 (POU2F1__TEF)     802 (POU3F1__aMEF-2)     836 (CUTL1__POU3F1)     849 (C-EBPbeta__POU2F1)     851 (POU2F1__aMEF-2)     871 (MEF-2A__POU2F1)     917 (FOXJ2__POU3F1)     922 (FOXJ2__POU2F1)     1034 (FOXD3__POU2F1)     1128 (POU2F1__STAT5A)     1180 (POU2F1__POU2F1)     1235 (MEF-2A__POU3F1)     1283 (Nkx6-2__POU3F1)     1448 (MRF-2__POU2F1)     1545 (POU3F1__TEF)     1571 (MRF-2__POU3F1)     1583 (HOXA5__POU3F1)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence ATTAwwATyA TrATssTAAT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 18 0 0 14 9 5 13 1 2 18
C 0 0 0 0 0 2 0 0 7 0
G 0 0 0 4 0 2 0 0 0 0
T 0 18 18 0 9 9 5 17 9 0
A T T A w w A T y A
1 2 3 4 5 6 7 8 9 10
A 0 9 17 5 9 9 0 18 18 0
C 0 0 0 0 2 0 4 0 0 0
G 0 7 0 0 2 0 0 0 0 0
T 18 2 1 13 5 9 14 0 0 18
T r A T w w T A A 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
ENSMUSG00000058194 Target Mus musculus chr2:87,300,526-87,300,535 + ATTAAAATCA – TGATTTTAAT
ENSMUSG00000058194_BTAU Orthologue Bos taurus chr2:605,267-605,276 + ATTAATATTA – TAATATTAAT
ENSMUSG00000058194_CFAM Orthologue Canis familiaris chr18:43,005,108-43,005,117 – ATTATTATTA + TAATAATAAT
ENSMUSG00000058194_CPOR Orthologue Cavia porcellus ENSMUSG00000058194_CPOR:7-16 – ATTATCTATA + TATAGATAAT
ENSMUSG00000058194_DNOV Orthologue Dasypus novemcinctus scaffold_90506:4,991-5,000 + ATTAATTTCA – TGAAATTAAT
ENSMUSG00000058194_DRER Orthologue Danio rerio chr21:14,186,294-14,186,303 – ATTATTATCA + TGATAATAAT
ENSMUSG00000058194_EEUR Orthologue Erinaceus europaeus ENSMUSG00000058194_EEUR:169-178 + ATTATAATAA – TTATTATAAT
ENSMUSG00000058194_ETEL Orthologue Echinops telfairi scaffold_240389:11,315-11,324 + ATTGATATTA – TAATATCAAT
ENSMUSG00000058194_HSAP Orthologue Homo sapiens chr11:55,492,718-55,492,727 + ATTAAAATCA – TGATTTTAAT
ENSMUSG00000058194_LAFR Orthologue Loxodonta africana scaffold_144:36,339-36,348 + ATTGTTATTA – TAATAACAAT
ENSMUSG00000058194_MDOM Orthologue Monodelphis domestica scaffold_33:17,378,364-17,378,373 – ATTGAAATTA + TAATTTCAAT
ENSMUSG00000058194_OCUN Orthologue Oryctolagus cuniculus scaffold_110707:14,908-14,917 – ATTATTATCA + TGATAATAAT
ENSMUSG00000058194_PTRO Orthologue Pan troglodytes 9_random:27,136,108-27,136,117 + ATTATGATTA – TAATCATAAT
ENSMUSG00000058194_RNOR Orthologue Rattus norvegicus chr3:71,033,845-71,033,854 – ATTATTTTCA + TGAAAATAAT
ENSMUSG00000058194_SARA Orthologue Sorex araneus ENSMUSG00000058194_SARA:268-277 – ATTAATATTA + TAATATTAAT
ENSMUSG00000058194_SSCR Orthologue Sus scrofa ENSMUSG00000058194_SSCR:558-567 – ATTAAGATAA + TTATCTTAAT
ENSMUSG00000058194_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000058194_STRI:197-206 – ATTGTCTTCA + TGAAGACAAT
ENSMUSG00000058194_TNIG Orthologue Tetraodon nigroviridis Un_random:126,486,713-126,486,722 – ATTAAATTTA + TAAATTTAAT

Questions or comments: cisred@bcgsc.ca