FILTERS:
pvalue:0.1
Motif craMmus66542
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 craMmus66542
Discovery p-value 2.79E-03
Motif location chr10: 128,974,060-128,974,069 (+) (10 bp)
Search region location chr10: 128,972,850-128,974,661 (+) (1,812 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 24 species: Mus musculus, Canis familiaris, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Felis catus, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Ovis aries, Oryctolagus cuniculus, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, 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.): HOXA5(1.43E-04) ,    POU3F2(5.34E-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 TAATATATAy rTATATATTA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 0 22 18 0 22 6 24 0 24 0
C 0 0 0 1 0 5 0 0 0 12
G 0 2 5 0 2 0 0 0 0 1
T 24 0 1 23 0 13 0 24 0 11
T A A T A w A T A y
1 2 3 4 5 6 7 8 9 10
A 11 0 24 0 13 0 23 1 0 24
C 1 0 0 0 0 2 0 5 2 0
G 12 0 0 0 5 0 1 0 0 0
T 0 24 0 24 6 22 0 18 22 0
r T A T w T A T 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
ENSMUSG00000049217 Target Mus musculus chr10:128,974,060-128,974,069 + TAATGTATAC – GTATACATTA
ENSMUSG00000049217_CFAM Orthologue Canis familiaris chrUn:18,368,599-18,368,608 – TAATAAATAC + GTATTTATTA
ENSMUSG00000049217_CJAC Orthologue Callithrix jacchus ENSMUSG00000049217_CJAC:753-762 – TAATATATAC + GTATATATTA
ENSMUSG00000049217_CPOR Orthologue Cavia porcellus ENSMUSG00000049217_CPOR:447-456 – TAATATATAT + ATATATATTA
ENSMUSG00000049217_DNOV Orthologue Dasypus novemcinctus scaffold_58329:7,507-7,516 + TAATACATAG – CTATGTATTA
ENSMUSG00000049217_DRER Orthologue Danio rerio chr15:36,057,136-36,057,145 – TAATAAATAT + ATATTTATTA
ENSMUSG00000049217_EEUR Orthologue Erinaceus europaeus ENSMUSG00000049217_EEUR:127-136 – TAATATATAT + ATATATATTA
ENSMUSG00000049217_ETEL Orthologue Echinops telfairi scaffold_280670:1,343-1,352 – TAGTAAATAC + GTATTTACTA
ENSMUSG00000049217_FCAT Orthologue Felis catus ENSMUSG00000049217_FCAT:131-140 + TAATAAATAC – GTATTTATTA
ENSMUSG00000049217_FRUB Orthologue Fugu rubripes chrUn:198,150,318-198,150,327 – TAATAAATAT + ATATTTATTA
ENSMUSG00000049217_HSAP Orthologue Homo sapiens chr12:54,011,844-54,011,853 – TAATATATAC + GTATATATTA
ENSMUSG00000049217_LAFR Orthologue Loxodonta africana scaffold_12177:13,202-13,211 + TAGTATATAC – GTATATACTA
ENSMUSG00000049217_MDOM Orthologue Monodelphis domestica scaffold_33:16,499,015-16,499,024 + TATTAAATAT – ATATTTAATA
ENSMUSG00000049217_MLUC Orthologue Myotis lucifugus ENSMUSG00000049217_MLUC:756-765 – TAGTACATAC + GTATGTACTA
ENSMUSG00000049217_MMUL Orthologue Macaca mulatta SCAFFOLD70084:108,886-108,895 + TAACATATAC – GTATATGTTA
ENSMUSG00000049217_OARI Orthologue Ovis aries ENSMUSG00000049217_OARI:107-116 – TAATACATAT + ATATGTATTA
ENSMUSG00000049217_OCUN Orthologue Oryctolagus cuniculus scaffold_213985:18,560-18,569 – TGATGTATAC + GTATACATCA
ENSMUSG00000049217_PCAP Orthologue Procavia capensis ENSMUSG00000049217_PCAP:388-397 – TAATACATAC + GTATGTATTA
ENSMUSG00000049217_PPYG Orthologue Pongo pygmaeus ENSMUSG00000049217_PPYG:1,603-1,612 – TAATATATAT + ATATATATTA
ENSMUSG00000049217_PTRO Orthologue Pan troglodytes chr10:55,258,738-55,258,747 – TAATATATAT + ATATATATTA
ENSMUSG00000049217_RNOR Orthologue Rattus norvegicus chr7:7,361,377-7,361,386 – TAATATATAC + GTATATATTA
ENSMUSG00000049217_SARA Orthologue Sorex araneus ENSMUSG00000049217_SARA:358-367 – TAGTATATAT + ATATATACTA
ENSMUSG00000049217_SSCR Orthologue Sus scrofa ENSMUSG00000049217_SSCR:264-273 – TGATACATAT + ATATGTATCA
ENSMUSG00000049217_TBEL Orthologue Tupaia belangeri ENSMUSG00000049217_TBEL:333-342 – TAGTATATAT + ATATATACTA

Questions or comments: cisred@bcgsc.ca