FILTERS:
pvalue:0.1
Motif craMmus392547
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 craMmus392547
Discovery p-value 2.79E-03
Motif location chr10: 128,851,058-128,851,065 (+) (8 bp)
Search region location chr10: 128,850,701-128,852,532 (+) (1,832 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 17 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sorex araneus
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (6 annot.): STAT5A(2.21E-04) ,    HNF-3(2.53E-04) ,    FOXP1a(3.67E-04) ,    Sox5(7.86E-04) ,    S8(8.41E-04) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
20 (FOXP1a__HNF-3)     72 (FOXP1a__HNF-1alpha)     173 (FOXP1a__TEF)     185 (HNF-1alpha__HNF-3)     223 (HNF-3__HNF-6)     232 (FOXP1a__MRF-2)     242 (IRF-1__STAT5A)     282 (FOXP1a__POU3F2)     302 (OCA-B__STAT5A)     326 (STAT5A__Sox9)     355 (FOXP1a__aMEF-2)     356 (HNF-3__OCA-B)     375 (HNF-3__POU2F1)     405 (POU1F1__STAT5A)     440 (HNF-6__STAT5A)     471 (FOXP1a__FOXP1a)     540 (IPF1__STAT5A)     593 (FOXP1a__STAT5A)     647 (RSRFC4__STAT5A)     660 (HNF-3__MEF-2A)     676 (FOXP1a__RSRFC4)     723 (HNF-3__Sox9)     729 (HNF-3__RSRFC4)     814 (HNF-3__HOXA3)     858 (HNF-3__POU3F2)     872 (FOXP1a__IRF-1)     965 (HNF-1alpha__STAT5A)     1003 (HNF-3__POU1F1)     1060 (HNF-3__IRF-1)     1063 (MEF-2A__STAT5A)     1128 (POU2F1__STAT5A)     1217 (FOXP1a__OCA-B)     1259 (FOXP1a__MEF-2A)     1272 (FOXP1a__Sox9)     1286 (HNF-3__MRF-2)     1298 (FOXP1a__POU2F1)     1340 (FOXP1a__POU1F1)     1405 (POU3F2__STAT5A)     1426 (HNF-3__IPF1)     1428 (HNF-3__aMEF-2)     1494 (MRF-2__STAT5A)     1535 (STAT5A__aMEF-2)     1565 (HNF-3__TEF)     1569 (FOXP1a__IPF1)     1588 (STAT5A__TEF)     1596 (FOXP1a__HNF-6)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence ATATAATT AATTATAT
Position frequency matrix
1 2 3 4 5 6 7 8
A 12 0 17 0 17 14 0 0
C 0 3 0 4 0 0 0 0
G 0 0 0 3 0 3 0 0
T 5 14 0 10 0 0 17 17
A T A y A A T T
1 2 3 4 5 6 7 8
A 17 17 0 0 10 0 14 5
C 0 0 3 0 3 0 0 0
G 0 0 0 0 4 0 3 0
T 0 0 14 17 0 17 0 12
A A T T m T 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
ENSMUSG00000057151 Target Mus musculus chr10:128,851,058-128,851,065 + ATACAATT – AATTGTAT
ENSMUSG00000057151_BTAU Orthologue Bos taurus chr5:35,272,987-35,272,994 – ATATAATT + AATTATAT
ENSMUSG00000057151_CFAM Orthologue Canis familiaris chr27:3,058,538-3,058,545 – ACATAATT + AATTATGT
ENSMUSG00000057151_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000057151_CHOF:89-96 + ATACAGTT – AACTGTAT
ENSMUSG00000057151_DNOV Orthologue Dasypus novemcinctus scaffold_90588:2,170-2,177 + TTATAATT – AATTATAA
ENSMUSG00000057151_ECAB Orthologue Equus caballus ENSMUSG00000057151_ECAB:115-122 – TCACAATT + AATTGTGA
ENSMUSG00000057151_ETEL Orthologue Echinops telfairi scaffold_303156:40,552-40,559 – ACATAATT + AATTATGT
ENSMUSG00000057151_FRUB Orthologue Fugu rubripes chrUn:56,774,958-56,774,965 – TTAGAATT + AATTCTAA
ENSMUSG00000057151_HSAP Orthologue Homo sapiens chr12:53,976,112-53,976,119 – ATAGAATT + AATTCTAT
ENSMUSG00000057151_LAFR Orthologue Loxodonta africana scaffold_8008:45,960-45,967 + TTACAATT – AATTGTAA
ENSMUSG00000057151_MDOM Orthologue Monodelphis domestica scaffold_33:18,479,673-18,479,680 – ATATAATT + AATTATAT
ENSMUSG00000057151_MLUC Orthologue Myotis lucifugus ENSMUSG00000057151_MLUC:144-151 – ATATAGTT + AACTATAT
ENSMUSG00000057151_MMUL Orthologue Macaca mulatta SCAFFOLD70084:149,253-149,260 + ATATAATT – AATTATAT
ENSMUSG00000057151_OCUN Orthologue Oryctolagus cuniculus scaffold_93908:2,050-2,057 + ATATAGTT – AACTATAT
ENSMUSG00000057151_PTRO Orthologue Pan troglodytes chr10:55,236,107-55,236,114 – ATAGAATT + AATTCTAT
ENSMUSG00000057151_RNOR Orthologue Rattus norvegicus chr7:4,406,532-4,406,539 – ATATAATT + AATTATAT
ENSMUSG00000057151_SARA Orthologue Sorex araneus ENSMUSG00000057151_SARA:182-189 – TTATAATT + AATTATAA

Questions or comments: cisred@bcgsc.ca