FILTERS:
pvalue:0.1
Motif craMmus395040
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 craMmus395040
Discovery p-value 2.79E-03
Motif location chr10: 129,214,271-129,214,280 (+) (10 bp)
Search region location chr10: 129,213,711-129,215,646 (+) (1,936 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 16 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Spermophilus tridecemlineatus, Xenopus tropicalis
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.): HMG_I(1.90E-05) ,    ELF-1(8.29E-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 AAwTmTAnAT ATnTAkAsTT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 16 11 9 0 7 0 11 0 16 0
C 0 0 0 0 9 0 0 4 0 0
G 0 0 0 3 0 0 5 6 0 0
T 0 5 7 13 0 16 0 6 0 16
A A w T m T A n A T
1 2 3 4 5 6 7 8 9 10
A 16 0 6 0 16 0 13 7 5 0
C 0 0 6 5 0 0 3 0 0 0
G 0 0 4 0 0 9 0 0 0 0
T 0 16 0 11 0 7 0 9 11 16
A T n T A k A w T 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
ENSMUSG00000057403 Target Mus musculus chr10:129,214,271-129,214,280 + ATTTCTATAT – ATATAGAAAT
ENSMUSG00000057403_BTAU Orthologue Bos taurus chr5:35,272,755-35,272,764 – ATTTATACAT + ATGTATAAAT
ENSMUSG00000057403_CFAM Orthologue Canis familiaris chr27:3,059,097-3,059,106 + AATTATGCAT – ATGCATAATT
ENSMUSG00000057403_DNOV Orthologue Dasypus novemcinctus scaffold_90588:1,444-1,453 + AAATCTATAT – ATATAGATTT
ENSMUSG00000057403_ETEL Orthologue Echinops telfairi scaffold_291129:51,092-51,101 – AATTATAGAT + ATCTATAATT
ENSMUSG00000057403_FRUB Orthologue Fugu rubripes chrUn:265,451,022-265,451,031 – ATATCTGTAT + ATACAGATAT
ENSMUSG00000057403_GGAL Orthologue Gallus gallus chr5:2,424,731-2,424,740 – AATGATGGAT + ATCCATCATT
ENSMUSG00000057403_HSAP Orthologue Homo sapiens chr12:53,975,305-53,975,314 + AAATCTACAT – ATGTAGATTT
ENSMUSG00000057403_LAFR Orthologue Loxodonta africana scaffold_8008:46,279-46,288 – ATTTCTAGAT + ATCTAGAAAT
ENSMUSG00000057403_MDOM Orthologue Monodelphis domestica scaffold_33:18,898,742-18,898,751 + ATAGATAGAT – ATCTATCTAT
ENSMUSG00000057403_MMUL Orthologue Macaca mulatta SCAFFOLD70084:149,965-149,974 + AATTCTATAT – ATATAGAATT
ENSMUSG00000057403_OCUN Orthologue Oryctolagus cuniculus scaffold_93908:3,111-3,120 – AAATATAGAT + ATCTATATTT
ENSMUSG00000057403_PTRO Orthologue Pan troglodytes chr10:55,235,300-55,235,309 + AAATCTACAT – ATGTAGATTT
ENSMUSG00000057403_RNOR Orthologue Rattus norvegicus chr7:7,050,818-7,050,827 – AAATCTGGAT + ATCCAGATTT
ENSMUSG00000057403_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000057403_STRI:41-50 + AAATATGTAT – ATACATATTT
ENSMUSG00000057403_XTRO Orthologue Xenopus tropicalis scaffold_10:4,549,370-4,549,379 – AAAGCTATAT + ATATAGCTTT

Questions or comments: cisred@bcgsc.ca