FILTERS:
pvalue:0.1
Motif craMmus279570
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 craMmus279570
Discovery p-value 2.79E-03
Motif location chr4: 53,673,298-53,673,309 (+) (12 bp)
Search region location chr4: 53,671,839-53,673,538 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 19 species: Mus musculus, Canis familiaris, Callithrix jacchus, Dasypus novemcinctus, Danio rerio, Equus caballus, Homo sapiens, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Sorex araneus, Sus scrofa, 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 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): aMEF-2(3.46E-04) ,    MEF-2A(7.66E-04) ,    FOXP1a(8.88E-04) ,    CAR(9.29E-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 TTTrwwwymAAA TTTkrsssyAAA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 0 0 0 8 11 11 10 0 9 17 19 19
C 0 0 1 0 1 0 0 9 9 0 0 0
G 0 0 1 11 0 0 0 0 0 2 0 0
T 19 19 17 0 7 8 9 10 1 0 0 0
T T T r w w w y m A A A
1 2 3 4 5 6 7 8 9 10 11 12
A 0 0 0 1 10 9 8 7 0 17 19 19
C 0 0 2 0 0 0 0 0 11 1 0 0
G 0 0 0 9 9 0 0 1 0 1 0 0
T 19 19 17 9 0 10 11 11 8 0 0 0
T T T k r w w w y A A 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
ENSMUSG00000039398 Target Mus musculus chr4:53,673,298-53,673,309 + TTTATTTTAAAA – TTTTAAAATAAA
ENSMUSG00000039398_CFAM Orthologue Canis familiaris chr11:64,386,217-64,386,228 + TTTGAAACCAAA – TTTGGTTTCAAA
ENSMUSG00000039398_CJAC Orthologue Callithrix jacchus ENSMUSG00000039398_CJAC:173-184 + TTTATTTTAAAA – TTTTAAAATAAA
ENSMUSG00000039398_DNOV Orthologue Dasypus novemcinctus scaffold_3527:25,124-25,135 – TTTAAATTAAAA + TTTTAATTTAAA
ENSMUSG00000039398_DRER Orthologue Danio rerio chr5:72,963,353-72,963,364 + TTTGAAACAAAA – TTTTGTTTCAAA
ENSMUSG00000039398_ECAB Orthologue Equus caballus ENSMUSG00000039398_ECAB:625-636 – TTGGTATTCAAA + TTTGAATACCAA
ENSMUSG00000039398_HSAP Orthologue Homo sapiens chr9:105,326,183-105,326,194 + TTTATTTTAAAA – TTTTAAAATAAA
ENSMUSG00000039398_MDOM Orthologue Monodelphis domestica scaffold_5:94,423,724-94,423,735 – TTTGAAATTAAA + TTTAATTTCAAA
ENSMUSG00000039398_MMUL Orthologue Macaca mulatta SCAFFOLD10889:46,359-46,370 + TTTATTTTAAAA – TTTTAAAATAAA
ENSMUSG00000039398_OCUN Orthologue Oryctolagus cuniculus scaffold_199523:1,765-1,776 – TTTGAAACCAAA + TTTGGTTTCAAA
ENSMUSG00000039398_OGAR Orthologue Otolemur garnettii ENSMUSG00000039398_OGAR:236-247 + TTTATTTTAAAA – TTTTAAAATAAA
ENSMUSG00000039398_PCAP Orthologue Procavia capensis ENSMUSG00000039398_PCAP:140-151 + TTTGAAACCGAA – TTCGGTTTCAAA
ENSMUSG00000039398_PPYG Orthologue Pongo pygmaeus ENSMUSG00000039398_PPYG:1,504-1,515 + TTTGTTTTAAAA – TTTTAAAACAAA
ENSMUSG00000039398_PTRO Orthologue Pan troglodytes chr11:89,796,324-89,796,335 + TTTGAAACCAAA – TTTGGTTTCAAA
ENSMUSG00000039398_SARA Orthologue Sorex araneus ENSMUSG00000039398_SARA:167-178 + TTTGAAACCAAA – TTTGGTTTCAAA
ENSMUSG00000039398_SSCR Orthologue Sus scrofa ENSMUSG00000039398_SSCR:188-199 – TTCACTACAGAA + TTCTGTAGTGAA
ENSMUSG00000039398_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000039398_STRI:339-350 + TTTGAAACCAAA – TTTGGTTTCAAA
ENSMUSG00000039398_TBEL Orthologue Tupaia belangeri ENSMUSG00000039398_TBEL:297-308 + TTTGAAACCAAA – TTTGGTTTCAAA
ENSMUSG00000039398_XTRO Orthologue Xenopus tropicalis scaffold_415:762,723-762,734 – TTTAATTTCAAA + TTTGAAATTAAA

Questions or comments: cisred@bcgsc.ca