FILTERS:
pvalue:0.1
Motif craMmus289090
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 craMmus289090
Discovery p-value 2.79E-03
Motif location chr6: 42,759,399-42,759,406 (+) (8 bp)
Search region location chr6: 42,758,815-42,760,654 (+) (1,840 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 21 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Felis catus, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Procavia capensis, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus, 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 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): Chx10(4.49E-05) ,    POU1F1(5.52E-04) ,    IRF-8(5.53E-04) ,    AFP1(9.05E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 No annotation-based modules contain this motif.
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AAAATAAA TTTATTTT
Position frequency matrix
1 2 3 4 5 6 7 8
A 21 21 21 13 0 21 21 19
C 0 0 0 2 2 0 0 0
G 0 0 0 0 0 0 0 0
T 0 0 0 6 19 0 0 2
A A A A T A A A
1 2 3 4 5 6 7 8
A 2 0 0 19 6 0 0 0
C 0 0 0 0 0 0 0 0
G 0 0 0 2 2 0 0 0
T 19 21 21 0 13 21 21 21
T T T A T T 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
ENSMUSG00000054431 Target Mus musculus chr6:42,759,399-42,759,406 + AAATTAAA – TTTAATTT
ENSMUSG00000054431_BTAU Orthologue Bos taurus chr4:58,667,425-58,667,432 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_CFAM Orthologue Canis familiaris chr16:8,884,897-8,884,904 – AAAATAAA + TTTATTTT
ENSMUSG00000054431_DNOV Orthologue Dasypus novemcinctus scaffold_170048:3,025-3,032 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_ECAB Orthologue Equus caballus ENSMUSG00000054431_ECAB:19-26 + AAAACAAA – TTTGTTTT
ENSMUSG00000054431_ETEL Orthologue Echinops telfairi scaffold_308532:1,090-1,097 + AAATTAAA – TTTAATTT
ENSMUSG00000054431_FCAT Orthologue Felis catus ENSMUSG00000054431_FCAT:19-26 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_FRUB Orthologue Fugu rubripes chrUn:198,144,529-198,144,536 + AAATTAAA – TTTAATTT
ENSMUSG00000054431_GGAL Orthologue Gallus gallus chr5:2,409,230-2,409,237 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_HSAP Orthologue Homo sapiens chr7:143,115,656-143,115,663 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_LAFR Orthologue Loxodonta africana scaffold_36964:4,329-4,336 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_MDOM Orthologue Monodelphis domestica scaffold_7:2,413,008-2,413,015 – AAATTAAA + TTTAATTT
ENSMUSG00000054431_MLUC Orthologue Myotis lucifugus ENSMUSG00000054431_MLUC:116-123 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_MMUL Orthologue Macaca mulatta SCAFFOLD30167:134,938-134,945 – AAAATAAA + TTTATTTT
ENSMUSG00000054431_PCAP Orthologue Procavia capensis ENSMUSG00000054431_PCAP:87-94 – AAAACAAA + TTTGTTTT
ENSMUSG00000054431_PTRO Orthologue Pan troglodytes chr6:145,865,240-145,865,247 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_RNOR Orthologue Rattus norvegicus chr4:70,985,699-70,985,706 – AAATTAAA + TTTAATTT
ENSMUSG00000054431_SARA Orthologue Sorex araneus ENSMUSG00000054431_SARA:38-45 + AAACTAAT – ATTAGTTT
ENSMUSG00000054431_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000054431_STRI:97-104 + AAACTAAT – ATTAGTTT
ENSMUSG00000054431_TNIG Orthologue Tetraodon nigroviridis chr2:14,428,999-14,429,006 + AAAATAAA – TTTATTTT
ENSMUSG00000054431_XTRO Orthologue Xenopus tropicalis scaffold_139:870,523-870,530 – AAATTAAA + TTTAATTT

Questions or comments: cisred@bcgsc.ca