FILTERS:
pvalue:0.1
Motif craMmus346667
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 craMmus346667
Discovery p-value 2.79E-03
Motif location chr18: 37,865,500-37,865,508 (+) (9 bp)
Search region location chr18: 37,864,166-37,865,865 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 14 species: Mus musculus, Callithrix jacchus, Dasypus novemcinctus, Equus caballus, Gallus gallus, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus, 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 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): AIRE(1.16E-04) ,    core-binding_factor(8.97E-04)
ORegAnno: (1 annot.): FoxA1(5.39E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence nAAAACAAA TTTGTTTTn
Position frequency matrix
1 2 3 4 5 6 7 8 9
A 4 14 14 10 13 0 14 11 14
C 4 0 0 0 1 14 0 0 0
G 4 0 0 4 0 0 0 0 0
T 2 0 0 0 0 0 0 3 0
n A A A A C A A A
1 2 3 4 5 6 7 8 9
A 0 3 0 0 0 0 0 0 2
C 0 0 0 0 0 4 0 0 4
G 0 0 0 14 1 0 0 0 4
T 14 11 14 0 13 10 14 14 4
T T T G T T T T n

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 chr18:37,865,500-37,865,508 + GAAACCAAA – TTTGGTTTC
ENSMUSG00000048347_CJAC Orthologue Callithrix jacchus ENSMUSG00000048347_CJAC:412-420 + CAAGACAAA – TTTGTCTTG
ENSMUSG00000048347_DNOV Orthologue Dasypus novemcinctus scaffold_35329:4,617-4,625 + TAAGACATA – TATGTCTTA
ENSMUSG00000048347_ECAB Orthologue Equus caballus ENSMUSG00000048347_ECAB:203-211 + CAAAACAAA – TTTGTTTTG
ENSMUSG00000048347_GGAL Orthologue Gallus gallus chrUn:36,704,123-36,704,131 – AAAAACAAA + TTTGTTTTT
ENSMUSG00000048347_LAFR Orthologue Loxodonta africana scaffold_83811:5,628-5,636 + GAAGACATA – TATGTCTTC
ENSMUSG00000048347_MDOM Orthologue Monodelphis domestica scaffold_6:67,335,249-67,335,257 – CAAAACAAA + TTTGTTTTG
ENSMUSG00000048347_MMUL Orthologue Macaca mulatta SCAFFOLD30831:32,014-32,022 + CAAGACAAA – TTTGTCTTG
ENSMUSG00000048347_PTRO Orthologue Pan troglodytes chr4:147,179,826-147,179,834 – GAAAACAAA + TTTGTTTTC
ENSMUSG00000048347_RNOR Orthologue Rattus norvegicus chr18:30,327,424-30,327,432 + TAAAACAAA – TTTGTTTTA
ENSMUSG00000048347_SARA Orthologue Sorex araneus ENSMUSG00000048347_SARA:372-380 + AAAAACAAA – TTTGTTTTT
ENSMUSG00000048347_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000048347_STRI:278-286 + AAAAACATA – TATGTTTTT
ENSMUSG00000048347_TBEL Orthologue Tupaia belangeri ENSMUSG00000048347_TBEL:130-138 + AAAAACAAA – TTTGTTTTT
ENSMUSG00000048347_XTRO Orthologue Xenopus tropicalis scaffold_15:3,902,190-3,902,198 + GAAAACAAA – TTTGTTTTC

Questions or comments: cisred@bcgsc.ca