FILTERS:
pvalue:0.1
Motif craMmus31953
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 craMmus31953
Discovery p-value 2.79E-03
Motif location chr5: 106,063,534-106,063,545 (-) (12 bp)
Search region location chr5: 106,063,356-106,065,148 (-) (1,793 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Homo sapiens, Monodelphis domestica, Macropus eugenii, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pan troglodytes, Spermophilus tridecemlineatus, Tupaia belangeri, 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 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (6 annot.): MEF-2A(3.95E-05) ,    aMEF-2(4.63E-05) ,    RSRFC4(2.85E-04) ,    Nkx2-5(4.52E-04) ,    HNF-1alpha(4.62E-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 TrAAsTTAACAT ATGTTAAwTTyA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 0 13 20 19 11 0 0 19 13 1 18 3
C 0 0 0 0 0 0 0 0 1 14 0 1
G 0 7 0 0 0 1 0 1 0 1 0 0
T 20 0 0 1 9 19 20 0 6 4 2 16
T n A A w T T A A C A T
1 2 3 4 5 6 7 8 9 10 11 12
A 16 2 4 6 0 20 19 9 1 0 0 20
C 0 0 1 0 1 0 1 0 0 0 7 0
G 1 0 14 1 0 0 0 0 0 0 0 0
T 3 18 1 13 19 0 0 11 19 20 13 0
A T G T T A A w T T n 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
ENSMUSG00000043410 Target Mus musculus chr5:106,063,534-106,063,545 + TAAAATTAACAT – ATGTTAATTTTA
ENSMUSG00000043410_BTAU Orthologue Bos taurus chr3:43,014,908-43,014,919 + TAAATTTAACAA – TTGTTAAATTTA
ENSMUSG00000043410_CFAM Orthologue Canis familiaris chr6:60,535,288-60,535,299 – TGAAATTAACAT + ATGTTAATTTCA
ENSMUSG00000043410_DNOV Orthologue Dasypus novemcinctus scaffold_203090:1,146-1,157 – TGAAATTAACAT + ATGTTAATTTCA
ENSMUSG00000043410_DRER Orthologue Danio rerio chr2:14,073,820-14,073,831 – TAATATTAACAT + ATGTTAATATTA
ENSMUSG00000043410_EEUR Orthologue Erinaceus europaeus ENSMUSG00000043410_EEUR:248-259 – TGAAATTAACAT + ATGTTAATTTCA
ENSMUSG00000043410_ETEL Orthologue Echinops telfairi scaffold_314993:47,791-47,802 + TAAATTTATTAT – ATAATAAATTTA
ENSMUSG00000043410_HSAP Orthologue Homo sapiens chr1:91,520,853-91,520,864 + TAAATTTATCAT – ATGATAAATTTA
ENSMUSG00000043410_MDOM Orthologue Monodelphis domestica scaffold_87:2,273,123-2,273,134 – TGAAATTAACAT + ATGTTAATTTCA
ENSMUSG00000043410_MEUG Orthologue Macropus eugenii ENSMUSG00000043410_MEUG:309-320 – TGAAATTGACAT + ATGTCAATTTCA
ENSMUSG00000043410_MLUC Orthologue Myotis lucifugus ENSMUSG00000043410_MLUC:407-418 – TGAAATTAACAC + GTGTTAATTTCA
ENSMUSG00000043410_MMUL Orthologue Macaca mulatta SCAFFOLD30305:78,902-78,913 + TAAATTTATCAT – ATGATAAATTTA
ENSMUSG00000043410_OCUN Orthologue Oryctolagus cuniculus scaffold_146914:3,893-3,904 – TGAAAGTAACAT + ATGTTACTTTCA
ENSMUSG00000043410_OGAR Orthologue Otolemur garnettii ENSMUSG00000043410_OGAR:539-550 – TAAATTTATCAT + ATGATAAATTTA
ENSMUSG00000043410_PCAP Orthologue Procavia capensis ENSMUSG00000043410_PCAP:404-415 – TAAATTTAATAT + ATATTAAATTTA
ENSMUSG00000043410_PTRO Orthologue Pan troglodytes chr1:90,292,222-90,292,233 + TAAATTTATCAT – ATGATAAATTTA
ENSMUSG00000043410_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000043410_STRI:28-39 – TAAAATTAAGAA + TTCTTAATTTTA
ENSMUSG00000043410_TBEL Orthologue Tupaia belangeri ENSMUSG00000043410_TBEL:418-429 – TAAATTTACTAA + TTAGTAAATTTA
ENSMUSG00000043410_TNIG Orthologue Tetraodon nigroviridis chr15:3,604,480-3,604,491 + TAAATTTATATT – AATATAAATTTA
ENSMUSG00000043410_XTRO Orthologue Xenopus tropicalis scaffold_652:9,396-9,407 – TAAAATTAATTT + AAATTAATTTTA

Questions or comments: cisred@bcgsc.ca