FILTERS:
pvalue:0.1
Motif craMmus297400
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 craMmus297400
Discovery p-value 2.79E-03
Motif location chr10: 129,691,324-129,691,335 (-) (12 bp)
Search region location chr10: 129,691,246-129,693,004 (-) (1,759 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 23 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Dasypus novemcinctus, Danio rerio, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Spermophilus tridecemlineatus
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 5 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): YY1(2.41E-04) ,    FOXP3(3.03E-04) ,    Pax-2(5.67E-04) ,    STAT5A(9.72E-04)
ORegAnno: (1 annot.): FoxA1(3.11E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence ATCATGGCATAn nTATGCCATGAT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 23 0 0 23 1 0 5 1 18 2 21 5
C 0 5 20 0 0 0 0 16 0 1 0 6
G 0 0 1 0 0 20 18 0 2 0 0 4
T 0 18 2 0 22 3 0 6 3 20 2 8
A T C A T G G C A T A n
1 2 3 4 5 6 7 8 9 10 11 12
A 8 2 20 3 6 0 3 22 0 2 18 0
C 4 0 0 2 0 18 20 0 0 1 0 0
G 6 0 1 0 16 0 0 0 0 20 5 0
T 5 21 2 18 1 5 0 1 23 0 0 23
n T A T G C C A T G A T

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
ENSMUSG00000059862 Target Mus musculus chr10:129,691,324-129,691,335 + ATCATGGCATAC – GTATGCCATGAT
ENSMUSG00000059862_CFAM Orthologue Canis familiaris chr27:3,305,657-3,305,668 + ATCATGGCATAC – GTATGCCATGAT
ENSMUSG00000059862_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000059862_CHOF:247-258 – ATTATGAATTAT + ATAATTCATAAT
ENSMUSG00000059862_CJAC Orthologue Callithrix jacchus ENSMUSG00000059862_CJAC:194-205 – ATCATGGCATAA + TTATGCCATGAT
ENSMUSG00000059862_DNOV Orthologue Dasypus novemcinctus scaffold_3678:13,228-13,239 – ACCATGGCACAT + ATGTGCCATGGT
ENSMUSG00000059862_DRER Orthologue Danio rerio chr15:36,007,284-36,007,295 – ATGATTGCATAT + ATATGCAATCAT
ENSMUSG00000059862_ECAB Orthologue Equus caballus ENSMUSG00000059862_ECAB:592-603 – ACCATGGCATAC + GTATGCCATGGT
ENSMUSG00000059862_EEUR Orthologue Erinaceus europaeus ENSMUSG00000059862_EEUR:245-256 – ACCATGATATAT + ATATATCATGGT
ENSMUSG00000059862_ETEL Orthologue Echinops telfairi scaffold_155445:748-759 – ATCATGGTATAT + ATATACCATGAT
ENSMUSG00000059862_FCAT Orthologue Felis catus ENSMUSG00000059862_FCAT:748-759 – ATCATGGCATAC + GTATGCCATGAT
ENSMUSG00000059862_HSAP Orthologue Homo sapiens chr12:53,793,889-53,793,900 – ATCATGGTAAAA + TTTTACCATGAT
ENSMUSG00000059862_LAFR Orthologue Loxodonta africana scaffold_14815:6,148-6,159 – ATTATTGCTTAG + CTAAGCAATAAT
ENSMUSG00000059862_MDOM Orthologue Monodelphis domestica scaffold_33:17,779,040-17,779,051 + ATCATGATATTA – TAATATCATGAT
ENSMUSG00000059862_MLUC Orthologue Myotis lucifugus ENSMUSG00000059862_MLUC:498-509 – ACCATGGCATAT + ATATGCCATGGT
ENSMUSG00000059862_MMUL Orthologue Macaca mulatta SCAFFOLD75451:4,877-4,888 + ATCATGGCATAA – TTATGCCATGAT
ENSMUSG00000059862_OCUN Orthologue Oryctolagus cuniculus scaffold_124820:3,232-3,243 + ATCAATGCATAC – GTATGCATTGAT
ENSMUSG00000059862_OGAR Orthologue Otolemur garnettii ENSMUSG00000059862_OGAR:718-729 – ACCATGGCATAT + ATATGCCATGGT
ENSMUSG00000059862_PCAP Orthologue Procavia capensis ENSMUSG00000059862_PCAP:243-254 – ATCATGGCGTAG + CTACGCCATGAT
ENSMUSG00000059862_PPYG Orthologue Pongo pygmaeus ENSMUSG00000059862_PPYG:603-614 – ATCATGGCATAA + TTATGCCATGAT
ENSMUSG00000059862_PTRO Orthologue Pan troglodytes chr10:55,064,801-55,064,812 + ATCATGACTATT – AATAGTCATGAT
ENSMUSG00000059862_RNOR Orthologue Rattus norvegicus chr7:8,424,877-8,424,888 + ATCATGGTATAC – GTATACCATGAT
ENSMUSG00000059862_SSCR Orthologue Sus scrofa ENSMUSG00000059862_SSCR:682-693 – ATCATGGTGTAG + CTACACCATGAT
ENSMUSG00000059862_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000059862_STRI:739-750 – ATCATGACATAG + CTATGTCATGAT

Questions or comments: cisred@bcgsc.ca