FILTERS:
pvalue:0.1
Motif craMmus202896
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 craMmus202896
Discovery p-value 2.79E-03
Motif location chr16: 58,827,458-58,827,465 (-) (8 bp)
Search region location chr16: 58,825,890-58,827,699 (-) (1,810 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 13 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sorex araneus
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (6 annot.): aMEF-2(2.80E-04) ,    RSRFC4(4.49E-04) ,    Chx10(4.56E-04) ,    RSRFC4(5.09E-04) ,    HNF-1alpha(5.79E-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 TATAATTT AAATTATA
Position frequency matrix
1 2 3 4 5 6 7 8
A 0 11 0 13 13 0 0 0
C 0 2 2 0 0 0 0 0
G 0 0 0 0 0 0 0 0
T 13 0 11 0 0 13 13 13
T A T A A T T T
1 2 3 4 5 6 7 8
A 13 13 13 0 0 11 0 13
C 0 0 0 0 0 0 0 0
G 0 0 0 0 0 2 2 0
T 0 0 0 13 13 0 11 0
A A A T T A T 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
ENSMUSG00000044029 Target Mus musculus chr16:58,827,458-58,827,465 + TATAATTT – AAATTATA
ENSMUSG00000044029_BTAU Orthologue Bos taurus chr1:22,332,932-22,332,939 + TATAATTT – AAATTATA
ENSMUSG00000044029_CFAM Orthologue Canis familiaris chr33:8,242,740-8,242,747 + TCTAATTT – AAATTAGA
ENSMUSG00000044029_DNOV Orthologue Dasypus novemcinctus scaffold_32553:37,872-37,879 – TATAATTT + AAATTATA
ENSMUSG00000044029_FRUB Orthologue Fugu rubripes chrUn:265,463,674-265,463,681 – TACAATTT + AAATTGTA
ENSMUSG00000044029_HSAP Orthologue Homo sapiens chr3:99,555,082-99,555,089 – TATAATTT + AAATTATA
ENSMUSG00000044029_LAFR Orthologue Loxodonta africana scaffold_21417:10,197-10,204 + TATAATTT – AAATTATA
ENSMUSG00000044029_MDOM Orthologue Monodelphis domestica scaffold_25:19,207,665-19,207,672 + TACAATTT – AAATTGTA
ENSMUSG00000044029_MMUL Orthologue Macaca mulatta SCAFFOLD6266:18,760-18,767 – TATAATTT + AAATTATA
ENSMUSG00000044029_OCUN Orthologue Oryctolagus cuniculus scaffold_101312:1,105-1,112 + TATAATTT – AAATTATA
ENSMUSG00000044029_PTRO Orthologue Pan troglodytes chr2:100,738,365-100,738,372 – TATAATTT + AAATTATA
ENSMUSG00000044029_RNOR Orthologue Rattus norvegicus chr11:42,474,937-42,474,944 – TATAATTT + AAATTATA
ENSMUSG00000044029_SARA Orthologue Sorex araneus ENSMUSG00000044029_SARA:385-392 + TCTAATTT – AAATTAGA

Questions or comments: cisred@bcgsc.ca