FILTERS:
pvalue:0.1
Motif craMmus208727
More information about this gene at Ensembl.org Go to UCSC
The contents of this page can be modified by changing your filter settings.
Currently, this page only shows information about a motif if it:
+ has a discovery p-value < 0.1
Filters based on species and motif discovery algorithms are not applied to the contents of this page.

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 craMmus208727
Discovery p-value 2.79E-03
Motif location chr2: 87,653,300-87,653,307 (+) (8 bp)
Search region location chr2: 87,651,923-87,653,737 (+) (1,815 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 15 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Gallus gallus, Loxodonta africana, Monodelphis domestica, Oryctolagus cuniculus, Procavia capensis, Rattus norvegicus, 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 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (6 annot.): Cdc5(1.49E-04) ,    Nkx6-2(6.07E-04) ,    HNF-1alpha(7.24E-04) ,    RSRFC4(7.78E-04) ,    RSRFC4(8.78E-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 TyAwATTT AAATsTrA
Position frequency matrix
1 2 3 4 5 6 7 8
A 0 0 15 6 15 0 0 0
C 0 7 0 0 0 0 0 0
G 0 0 0 0 0 0 0 0
T 15 8 0 9 0 15 15 15
T y A w A T T T
1 2 3 4 5 6 7 8
A 15 15 15 0 9 0 8 15
C 0 0 0 0 0 0 0 0
G 0 0 0 0 0 0 7 0
T 0 0 0 15 6 15 0 0
A A A T w T r 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
ENSMUSG00000068814 Target Mus musculus chr2:87,653,300-87,653,307 + TTAAATTT – AAATTTAA
ENSMUSG00000068814_BTAU Orthologue Bos taurus chr1:22,298,412-22,298,419 + TTAAATTT – AAATTTAA
ENSMUSG00000068814_CFAM Orthologue Canis familiaris chr18:43,003,564-43,003,571 + TTAAATTT – AAATTTAA
ENSMUSG00000068814_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000068814_CHOF:329-336 – TTATATTT + AAATATAA
ENSMUSG00000068814_DNOV Orthologue Dasypus novemcinctus scaffold_90506:4,144-4,151 + TTAAATTT – AAATTTAA
ENSMUSG00000068814_DRER Orthologue Danio rerio chr10:33,779,869-33,779,876 – TCAAATTT + AAATTTGA
ENSMUSG00000068814_ETEL Orthologue Echinops telfairi scaffold_240389:2,022-2,029 + TTATATTT – AAATATAA
ENSMUSG00000068814_GGAL Orthologue Gallus gallus chr5:61,593-61,600 – TCATATTT + AAATATGA
ENSMUSG00000068814_LAFR Orthologue Loxodonta africana scaffold_17988:11,187-11,194 + TCAAATTT – AAATTTGA
ENSMUSG00000068814_MDOM Orthologue Monodelphis domestica scaffold_33:16,970,389-16,970,396 + TCATATTT – AAATATGA
ENSMUSG00000068814_OCUN Orthologue Oryctolagus cuniculus scaffold_110707:14,829-14,836 – TCATATTT + AAATATGA
ENSMUSG00000068814_PCAP Orthologue Procavia capensis ENSMUSG00000068814_PCAP:240-247 – TTATATTT + AAATATAA
ENSMUSG00000068814_RNOR Orthologue Rattus norvegicus chr3:71,494,679-71,494,686 – TCATATTT + AAATATGA
ENSMUSG00000068814_SSCR Orthologue Sus scrofa ENSMUSG00000068814_SSCR:290-297 – TCATATTT + AAATATGA
ENSMUSG00000068814_TBEL Orthologue Tupaia belangeri ENSMUSG00000068814_TBEL:171-178 – TTATATTT + AAATATAA

Questions or comments: cisred@bcgsc.ca