FILTERS:
pvalue:0.1
Motif craMmus346428
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 craMmus346428
Discovery p-value 2.79E-03
Motif location chr18: 37,865,404-37,865,409 (+) (6 bp)
Search region location chr18: 37,864,166-37,865,865 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 13 species: Mus musculus, Callithrix jacchus, Dasypus novemcinctus, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Tupaia belangeri, Xenopus tropicalis
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: (5 annot.): HMG_I(1.66E-04) ,    HNF-3(3.17E-04) ,    Cdx-2(5.47E-04) ,    Pax-6(6.93E-04) ,    Nkx6-2(9.09E-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 TTAAAA TTTTAA
Position frequency matrix
1 2 3 4 5 6
A 0 0 13 13 13 13
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 13 13 0 0 0 0
T T A A A A
1 2 3 4 5 6
A 0 0 0 0 13 13
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 13 13 13 13 0 0
T T T T 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
ENSMUSG00000048347 Target Mus musculus chr18:37,865,404-37,865,409 + TTAAAA – TTTTAA
ENSMUSG00000048347_CJAC Orthologue Callithrix jacchus ENSMUSG00000048347_CJAC:222-227 + TTAAAA – TTTTAA
ENSMUSG00000048347_DNOV Orthologue Dasypus novemcinctus scaffold_35329:4,357-4,362 + TTAAAA – TTTTAA
ENSMUSG00000048347_GGAL Orthologue Gallus gallus chrUn:36,704,284-36,704,289 – TTAAAA + TTTTAA
ENSMUSG00000048347_HSAP Orthologue Homo sapiens chr5:140,551,199-140,551,204 + TTAAAA – TTTTAA
ENSMUSG00000048347_LAFR Orthologue Loxodonta africana scaffold_83811:4,870-4,875 + TTAAAA – TTTTAA
ENSMUSG00000048347_MDOM Orthologue Monodelphis domestica scaffold_6:67,336,702-67,336,707 – TTAAAA + TTTTAA
ENSMUSG00000048347_MMUL Orthologue Macaca mulatta SCAFFOLD30831:30,642-30,647 + TTAAAA – TTTTAA
ENSMUSG00000048347_OCUN Orthologue Oryctolagus cuniculus scaffold_198387:93,250-93,255 – TTAAAA + TTTTAA
ENSMUSG00000048347_PTRO Orthologue Pan troglodytes chr4:147,180,114-147,180,119 + TTAAAA – TTTTAA
ENSMUSG00000048347_RNOR Orthologue Rattus norvegicus chr18:30,327,462-30,327,467 + TTAAAA – TTTTAA
ENSMUSG00000048347_TBEL Orthologue Tupaia belangeri ENSMUSG00000048347_TBEL:120-125 + TTAAAA – TTTTAA
ENSMUSG00000048347_XTRO Orthologue Xenopus tropicalis scaffold_15:3,901,353-3,901,358 – TTAAAA + TTTTAA

Questions or comments: cisred@bcgsc.ca