FILTERS:
pvalue:0.1
Motif craMmus199043
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 craMmus199043
Discovery p-value 2.79E-03
Motif location chr10: 128,662,764-128,662,773 (-) (10 bp)
Search region location chr10: 128,662,551-128,664,522 (-) (1,972 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 22 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Felis catus, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Ovis aries, Otolemur garnettii, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus, Tupaia belangeri
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.): POU1F1(2.61E-04) ,    HOXA5(3.02E-04) ,    OCA-B(3.06E-04) ,    Hlf(3.10E-04) ,    POU2F1(6.31E-04) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
57 (OCA-B__Sox9)     63 (HNF-6__POU1F1)     77 (FOXP3__HOXA5)     135 (HOXA5__Sox9)     139 (OCA-B__POU2F1)     221 (OCA-B__S8)     233 (AIRE__POU1F1)     339 (HOXA5__S8)     343 (POU1F1__S8)     438 (HOXA5__POU2F1)     465 (HOXA5__RSRFC4)     483 (HOXA5__MRF-2)     514 (AIRE__HOXA5)     522 (POU1F1__POU2F1)     590 (IRF-7A__POU1F1)     591 (Hlf__IRF-7A)     604 (AIRE__OCA-B)     618 (HNF-6__OCA-B)     697 (HNF-6__Hlf)     716 (HOXA5__IRF-7A)     773 (POU1F1__Sox9)     946 (OCA-B__RSRFC4)     1079 (FOXJ2__HOXA5)     1110 (FOXJ2__POU1F1)     1159 (Hlf__POU2F1)     1198 (IRF-7A__OCA-B)     1215 (HOXA3__POU1F1)     1217 (FOXP1a__OCA-B)     1232 (IRF-1__OCA-B)     1269 (MRF-2__OCA-B)     1285 (IRF-1__POU1F1)     1299 (Hlf__S8)     1340 (FOXP1a__POU1F1)     1356 (HOXA5__IRF-1)     1363 (POU1F1__RSRFC4)     1385 (FOXP1a__Hlf)     1412 (FOXP1a__HOXA5)     1422 (Hlf__RSRFC4)     1431 (FOXJ2__Hlf)     1433 (FOXJ2__OCA-B)     1500 (MRF-2__POU1F1)     1576 (HNF-6__HOXA5)     1590 (FOXP3__POU1F1)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence ssTAyTyAAy rTTrArTAww
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 11 13 1 22 0 0 0 18 20 0
C 0 0 3 0 11 1 14 0 1 14
G 0 0 0 0 0 0 0 0 0 0
T 11 9 18 0 11 21 8 4 1 8
w w T A y T n A A n
1 2 3 4 5 6 7 8 9 10
A 8 1 4 8 21 11 0 18 9 11
C 0 0 0 0 0 0 0 0 0 0
G 14 1 0 14 1 11 0 3 0 0
T 0 20 18 0 0 0 22 1 13 11
n T T n A r T A w w

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
ENSMUSG00000061367 Target Mus musculus chr10:128,662,764-128,662,773 + ATTATTCAAC – GTTGAATAAT
ENSMUSG00000061367_CFAM Orthologue Canis familiaris chr10:19,146,570-19,146,579 – TACATTCAAC + GTTGAATGTA
ENSMUSG00000061367_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000061367_CHOF:119-128 + AACATTCATC – GATGAATGTT
ENSMUSG00000061367_CPOR Orthologue Cavia porcellus ENSMUSG00000061367_CPOR:23-32 – TTTACTTTAC + GTAAAGTAAA
ENSMUSG00000061367_DNOV Orthologue Dasypus novemcinctus scaffold_28870:6,295-6,304 – TACACTCAAT + ATTGAGTGTA
ENSMUSG00000061367_ECAB Orthologue Equus caballus ENSMUSG00000061367_ECAB:197-206 – TATACTTACC + GGTAAGTATA
ENSMUSG00000061367_ETEL Orthologue Echinops telfairi scaffold_270856:15,550-15,559 – ATTACTTAAT + ATTAAGTAAT
ENSMUSG00000061367_FCAT Orthologue Felis catus ENSMUSG00000061367_FCAT:182-191 – TATACTTAAC + GTTAAGTATA
ENSMUSG00000061367_FRUB Orthologue Fugu rubripes chrUn:265,470,120-265,470,129 – ATTATTCAAT + ATTGAATAAT
ENSMUSG00000061367_GGAL Orthologue Gallus gallus chr5:2,409,633-2,409,642 + TATACTTAAC – GTTAAGTATA
ENSMUSG00000061367_HSAP Orthologue Homo sapiens chr12:54,105,148-54,105,157 + AATATTTAAC – GTTAAATATT
ENSMUSG00000061367_LAFR Orthologue Loxodonta africana scaffold_23167:34,391-34,400 + TATACTCAAC – GTTGAGTATA
ENSMUSG00000061367_MDOM Orthologue Monodelphis domestica scaffold_33:16,188,601-16,188,610 – TTTATTCAAT + ATTGAATAAA
ENSMUSG00000061367_MLUC Orthologue Myotis lucifugus ENSMUSG00000061367_MLUC:96-105 + AATATTCAAC – GTTGAATATT
ENSMUSG00000061367_MMUL Orthologue Macaca mulatta SCAFFOLD70084:2,994-3,003 – ATTATTCTAT + ATAGAATAAT
ENSMUSG00000061367_OARI Orthologue Ovis aries ENSMUSG00000061367_OARI:37-46 – ATTATTCTAT + ATAGAATAAT
ENSMUSG00000061367_OGAR Orthologue Otolemur garnettii ENSMUSG00000061367_OGAR:229-238 – TATACTCAAC + GTTGAGTATA
ENSMUSG00000061367_PTRO Orthologue Pan troglodytes 10_random:21,934,864-21,934,873 + AATATCTAAC – GTTAGATATT
ENSMUSG00000061367_RNOR Orthologue Rattus norvegicus chr7:4,932,717-4,932,726 – ATTACTCAAT + ATTGAGTAAT
ENSMUSG00000061367_SARA Orthologue Sorex araneus ENSMUSG00000061367_SARA:52-61 + TTTACTTTAC – GTAAAGTAAA
ENSMUSG00000061367_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000061367_STRI:684-693 – TATACTCAAC + GTTGAGTATA
ENSMUSG00000061367_TBEL Orthologue Tupaia belangeri ENSMUSG00000061367_TBEL:286-295 – AAAATTCAAT + ATTGAATTTT

Questions or comments: cisred@bcgsc.ca