FILTERS:
pvalue:0.1
Motif craMmus355038
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 craMmus355038
Discovery p-value 2.79E-03
Motif location chr13: 63,009,613-63,009,622 (+) (10 bp)
Search region location chr13: 63,008,192-63,009,964 (+) (1,773 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 16 species: Mus musculus, Bos taurus, Choloepus hoffmanni, Danio rerio, Equus caballus, Erinaceus europaeus, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Otolemur garnettii, Rattus norvegicus, Tetraodon nigroviridis, 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.): Evi-1(8.00E-05) ,    POU2F1(1.09E-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 wTAwwATCAT ATGATssTAs
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 10 0 16 8 5 13 4 0 16 1
C 0 0 0 1 3 0 0 13 0 0
G 0 0 0 0 0 0 0 1 0 0
T 6 16 0 7 8 3 12 2 0 15
n T A w w A T C A T
1 2 3 4 5 6 7 8 9 10
A 15 0 2 12 3 8 7 0 16 6
C 0 0 1 0 0 0 0 0 0 0
G 0 0 13 0 0 3 1 0 0 0
T 1 16 0 4 13 5 8 16 0 10
A T G A T w w T A 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
ENSMUSG00000051466 Target Mus musculus chr13:63,009,613-63,009,622 + ATAATATCAT – ATGATATTAT
ENSMUSG00000051466_BTAU Orthologue Bos taurus chr11:75,218,678-75,218,687 – TTATCATCAT + ATGATGATAA
ENSMUSG00000051466_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000051466_CHOF:95-104 – TTATTAAGAT + ATCTTAATAA
ENSMUSG00000051466_DRER Orthologue Danio rerio chr10:33,720,488-33,720,497 – ATATTTACAT + ATGTAAATAT
ENSMUSG00000051466_ECAB Orthologue Equus caballus ENSMUSG00000051466_ECAB:140-149 – TTATTTTCAT + ATGAAAATAA
ENSMUSG00000051466_EEUR Orthologue Erinaceus europaeus ENSMUSG00000051466_EEUR:23-32 – TTATAAACAT + ATGTTTATAA
ENSMUSG00000051466_ETEL Orthologue Echinops telfairi scaffold_206473:2,583-2,592 – TTAAATTCAT + ATGAATTTAA
ENSMUSG00000051466_GGAL Orthologue Gallus gallus chr5:58,151-58,160 + ATACTATCAT – ATGATAGTAT
ENSMUSG00000051466_HSAP Orthologue Homo sapiens chr1:244,108,518-244,108,527 – ATAAAATCAA + TTGATTTTAT
ENSMUSG00000051466_LAFR Orthologue Loxodonta africana scaffold_156204:2,101-2,110 + ATAATAACAT – ATGTTATTAT
ENSMUSG00000051466_MDOM Orthologue Monodelphis domestica scaffold_33:17,532,497-17,532,506 + ATATTATTAT – ATAATAATAT
ENSMUSG00000051466_MMUL Orthologue Macaca mulatta SCAFFOLD478:4,619-4,628 – ATAAAATCAT + ATGATTTTAT
ENSMUSG00000051466_OGAR Orthologue Otolemur garnettii ENSMUSG00000051466_OGAR:355-364 – TTAACATCAT + ATGATGTTAA
ENSMUSG00000051466_RNOR Orthologue Rattus norvegicus chr17:5,520,536-5,520,545 – ATAACATCAT + ATGATGTTAT
ENSMUSG00000051466_TNIG Orthologue Tetraodon nigroviridis chr2:14,426,796-14,426,805 – ATAATATCAT + ATGATATTAT
ENSMUSG00000051466_XTRO Orthologue Xenopus tropicalis scaffold_786:497,159-497,168 + ATATAATTAT – ATAATTATAT

Questions or comments: cisred@bcgsc.ca