FILTERS:
pvalue:0.1
Motif craMmus415267
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 craMmus415267
Discovery p-value 2.79E-03
Motif location chr3: 19,376,252-19,376,261 (+) (10 bp)
Search region location chr3: 19,374,666-19,376,683 (+) (2,018 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 21 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Erinaceus europaeus, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus, Tupaia belangeri, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 1 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (1 annot.): HNF-1alpha(2.28E-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 wTGTsAACAA TTGTTwACAs
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 8 0 6 0 0 14 21 0 21 19
C 0 0 0 0 10 0 0 21 0 0
G 0 0 15 0 6 7 0 0 0 2
T 13 21 0 21 5 0 0 0 0 0
n T G T s A A C A A
1 2 3 4 5 6 7 8 9 10
A 0 0 0 0 0 5 21 0 21 13
C 2 0 0 0 7 6 0 15 0 0
G 0 0 21 0 0 10 0 0 0 0
T 19 21 0 21 14 0 0 6 0 8
T T G T T s A C A n

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
ENSMUSG00000060913 Target Mus musculus chr3:19,376,252-19,376,261 + TTGTTAACAA – TTGTTAACAA
ENSMUSG00000060913_CFAM Orthologue Canis familiaris chr29:18,789,148-18,789,157 + ATATGGACAA – TTGTCCATAT
ENSMUSG00000060913_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000060913_CHOF:298-307 + ATATGGACAA – TTGTCCATAT
ENSMUSG00000060913_CPOR Orthologue Cavia porcellus ENSMUSG00000060913_CPOR:495-504 – ATGTTAACAA + TTGTTAACAT
ENSMUSG00000060913_DNOV Orthologue Dasypus novemcinctus scaffold_70854:5,650-5,659 + TTGTCAACAA – TTGTTGACAA
ENSMUSG00000060913_ECAB Orthologue Equus caballus ENSMUSG00000060913_ECAB:1,204-1,213 – TTGTCAACAA + TTGTTGACAA
ENSMUSG00000060913_EEUR Orthologue Erinaceus europaeus ENSMUSG00000060913_EEUR:106-115 – TTGTCAACAA + TTGTTGACAA
ENSMUSG00000060913_ETEL Orthologue Echinops telfairi scaffold_162287:961-970 – TTGTCAACAA + TTGTTGACAA
ENSMUSG00000060913_HSAP Orthologue Homo sapiens chr8:67,200,646-67,200,655 + ATGTTAACAA – TTGTTAACAT
ENSMUSG00000060913_LAFR Orthologue Loxodonta africana scaffold_7673:52,205-52,214 + TTGTCAACAA – TTGTTGACAA
ENSMUSG00000060913_MDOM Orthologue Monodelphis domestica scaffold_4:95,537,655-95,537,664 – ATATGGACAG + CTGTCCATAT
ENSMUSG00000060913_MLUC Orthologue Myotis lucifugus ENSMUSG00000060913_MLUC:91-100 – TTGTCAACAA + TTGTTGACAA
ENSMUSG00000060913_MMUL Orthologue Macaca mulatta SCAFFOLD86085:21,366-21,375 + TTGTCAACAA – TTGTTGACAA
ENSMUSG00000060913_OCUN Orthologue Oryctolagus cuniculus scaffold_154124:13,443-13,452 – TTGTTGACAA + TTGTCAACAA
ENSMUSG00000060913_PCAP Orthologue Procavia capensis ENSMUSG00000060913_PCAP:519-528 + ATATGGACAA – TTGTCCATAT
ENSMUSG00000060913_PTRO Orthologue Pan troglodytes chr7:69,204,098-69,204,107 + ATGTTAACAA – TTGTTAACAT
ENSMUSG00000060913_RNOR Orthologue Rattus norvegicus chr2:104,666,134-104,666,143 – TTGTCAACAA + TTGTTGACAA
ENSMUSG00000060913_SARA Orthologue Sorex araneus ENSMUSG00000060913_SARA:274-283 + TTATGGACAA – TTGTCCATAA
ENSMUSG00000060913_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000060913_STRI:167-176 – TTGTCAACAA + TTGTTGACAA
ENSMUSG00000060913_TBEL Orthologue Tupaia belangeri ENSMUSG00000060913_TBEL:225-234 – TTGTCAACAA + TTGTTGACAA
ENSMUSG00000060913_XTRO Orthologue Xenopus tropicalis scaffold_777:493,636-493,645 + ATATGGACAG – CTGTCCATAT

Questions or comments: cisred@bcgsc.ca