FILTERS:
pvalue:0.1
Motif craMmus289165
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 craMmus289165
Discovery p-value 2.79E-03
Motif location chr6: 42,759,440-42,759,449 (+) (10 bp)
Search region location chr6: 42,758,815-42,760,654 (+) (1,840 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Bos taurus, Canis familiaris, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Gallus gallus, Homo sapiens, Loxodonta africana, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Sorex araneus, Spermophilus tridecemlineatus, Tupaia belangeri
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.): FOXO1(3.60E-04) ,    HNF-3alpha(8.46E-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 TGTAyTTCTT AAGAArTACA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 2 0 0 17 0 4 0 0 0 0
C 0 0 0 0 12 0 0 15 1 0
G 0 20 0 0 1 0 0 0 0 0
T 18 0 20 3 7 16 20 5 19 20
T G T A y T T C T T
1 2 3 4 5 6 7 8 9 10
A 20 19 5 20 16 7 3 20 0 18
C 0 0 0 0 0 1 0 0 20 0
G 0 1 15 0 0 12 0 0 0 0
T 0 0 0 0 4 0 17 0 0 2
A A G A A r T A C 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
ENSMUSG00000054431 Target Mus musculus chr6:42,759,440-42,759,449 + TGTTTTTCTT – AAGAAAAACA
ENSMUSG00000054431_BTAU Orthologue Bos taurus chr4:58,667,425-58,667,434 – AGTTTATTTT + AAAATAAACT
ENSMUSG00000054431_CFAM Orthologue Canis familiaris chr16:8,884,724-8,884,733 – TGTACTTCTT + AAGAAGTACA
ENSMUSG00000054431_CPOR Orthologue Cavia porcellus ENSMUSG00000054431_CPOR:644-653 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_DNOV Orthologue Dasypus novemcinctus scaffold_170048:3,196-3,205 + TGTATTTCTT – AAGAAATACA
ENSMUSG00000054431_ECAB Orthologue Equus caballus ENSMUSG00000054431_ECAB:15-24 – TGTTTTTCCT + AGGAAAAACA
ENSMUSG00000054431_EEUR Orthologue Erinaceus europaeus ENSMUSG00000054431_EEUR:425-434 + TGTACTTTTT – AAAAAGTACA
ENSMUSG00000054431_ETEL Orthologue Echinops telfairi scaffold_308532:2,152-2,161 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_FCAT Orthologue Felis catus ENSMUSG00000054431_FCAT:192-201 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_GGAL Orthologue Gallus gallus chr5:2,408,581-2,408,590 – TGTATATTTT + AAAATATACA
ENSMUSG00000054431_HSAP Orthologue Homo sapiens chr7:143,114,938-143,114,947 + TGTATATCTT – AAGATATACA
ENSMUSG00000054431_LAFR Orthologue Loxodonta africana scaffold_36964:4,500-4,509 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_MLUC Orthologue Myotis lucifugus ENSMUSG00000054431_MLUC:288-297 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_MMUL Orthologue Macaca mulatta SCAFFOLD30167:136,181-136,190 + AGTAGTTTTT – AAAAACTACT
ENSMUSG00000054431_OCUN Orthologue Oryctolagus cuniculus scaffold_148675:3,008-3,017 + TGTACTTTTT – AAAAAGTACA
ENSMUSG00000054431_PCAP Orthologue Procavia capensis ENSMUSG00000054431_PCAP:299-308 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_PTRO Orthologue Pan troglodytes chr6:145,864,523-145,864,532 + TGTATATCTT – AAGATATACA
ENSMUSG00000054431_SARA Orthologue Sorex araneus ENSMUSG00000054431_SARA:225-234 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000054431_STRI:285-294 + TGTACTTCTT – AAGAAGTACA
ENSMUSG00000054431_TBEL Orthologue Tupaia belangeri ENSMUSG00000054431_TBEL:291-300 + TGTACTTCTT – AAGAAGTACA

Questions or comments: cisred@bcgsc.ca