FILTERS:
pvalue:0.1
Motif craMmus355011
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 craMmus355011
Discovery p-value 2.79E-03
Motif location chr7: 100,141,581-100,141,590 (-) (10 bp)
Search region location chr7: 100,141,268-100,142,967 (-) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Equus caballus, Felis catus, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Myotis lucifugus, Macaca mulatta, Microcebus murinus, Otolemur garnettii, Papio anubis, Pan troglodytes, Rattus norvegicus, Spermophilus tridecemlineatus, Tupaia belangeri, Tetraodon nigroviridis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 5 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): HOXA5(4.64E-05) ,    aMEF-2(2.44E-04) ,    POU1F1(2.56E-04) ,    S8(3.78E-04)
ORegAnno: (1 annot.): FoxA1(6.44E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence TTrAyAATGA TCATTrTyAA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 3 0 9 19 0 12 20 0 0 20
C 0 1 0 0 8 3 0 0 0 0
G 3 0 7 1 0 5 0 0 18 0
T 14 19 4 0 12 0 0 20 2 0
T T r A y r A T G A
1 2 3 4 5 6 7 8 9 10
A 0 2 20 0 0 12 0 4 19 14
C 0 18 0 0 5 0 1 7 0 3
G 0 0 0 0 3 8 0 0 1 0
T 20 0 0 20 12 0 19 9 0 3
T C A T y r T y A 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
ENSMUSG00000051340 Target Mus musculus chr7:100,141,581-100,141,590 + TTAATAATGA – TCATTATTAA
ENSMUSG00000051340_BTAU Orthologue Bos taurus chr15:31,276,538-31,276,547 + ATAATCATGA – TCATGATTAT
ENSMUSG00000051340_CFAM Orthologue Canis familiaris chr21:31,681,239-31,681,248 – TTAACAATGA + TCATTGTTAA
ENSMUSG00000051340_DNOV Orthologue Dasypus novemcinctus scaffold_64184:7,415-7,424 + ATAGCAATTA – TAATTGCTAT
ENSMUSG00000051340_ECAB Orthologue Equus caballus ENSMUSG00000051340_ECAB:214-223 + GTGATAATGA – TCATTATCAC
ENSMUSG00000051340_FCAT Orthologue Felis catus ENSMUSG00000051340_FCAT:191-200 – TTAACAATGA + TCATTGTTAA
ENSMUSG00000051340_FRUB Orthologue Fugu rubripes chrUn:56,773,492-56,773,501 – TCGATCATGA + TCATGATCGA
ENSMUSG00000051340_GGAL Orthologue Gallus gallus chrUn:26,758,883-26,758,892 + TTGATGATGA – TCATCATCAA
ENSMUSG00000051340_HSAP Orthologue Homo sapiens chr11:5,431,095-5,431,104 – TTTATGATGA + TCATCATAAA
ENSMUSG00000051340_LAFR Orthologue Loxodonta africana scaffold_48864:12,515-12,524 + TTGACAATGA – TCATTGTCAA
ENSMUSG00000051340_MLUC Orthologue Myotis lucifugus ENSMUSG00000051340_MLUC:170-179 – TTTATCATGA + TCATGATAAA
ENSMUSG00000051340_MMUL Orthologue Macaca mulatta SCAFFOLD125652:57,930-57,939 + GTAATAATGA – TCATTATTAC
ENSMUSG00000051340_MMUR Orthologue Microcebus murinus ENSMUSG00000051340_MMUR:678-687 – TTGACAATGA + TCATTGTCAA
ENSMUSG00000051340_OGAR Orthologue Otolemur garnettii ENSMUSG00000051340_OGAR:329-338 – TTGACGATGA + TCATCGTCAA
ENSMUSG00000051340_PANU Orthologue Papio anubis ENSMUSG00000051340_PANU:186-195 + GTAATAATGA – TCATTATTAC
ENSMUSG00000051340_PTRO Orthologue Pan troglodytes chr9:5,514,790-5,514,799 – TTTATGATGA + TCATCATAAA
ENSMUSG00000051340_RNOR Orthologue Rattus norvegicus chr1:162,017,800-162,017,809 – TTAATGATTA + TAATCATTAA
ENSMUSG00000051340_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000051340_STRI:242-251 – TTTACAATGA + TCATTGTAAA
ENSMUSG00000051340_TBEL Orthologue Tupaia belangeri ENSMUSG00000051340_TBEL:463-472 – TTGACAATGA + TCATTGTCAA
ENSMUSG00000051340_TNIG Orthologue Tetraodon nigroviridis Un_random:135,739,771-135,739,780 + ATAATAATGA – TCATTATTAT

Questions or comments: cisred@bcgsc.ca