FILTERS:
pvalue:0.1
Motif craHsap5753
More information about this gene at Ensembl.org Go to UCSC
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Currently, this page only shows information about a motif if it:
+ has a discovery p-value < 0.1
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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 craHsap5753
Discovery p-value 1.00E-02
Motif location chr1: 35,794,360-35,794,372 (+) (13 bp)
Search region location chr1: 35,794,161-35,795,860 (+) (1,700 bp)
Assembly Human, Ensembl v40 (NCBI 36)
Found in 21 species: Pan troglodytes, Macaca mulatta, Procavia capensis, Loxodonta africana, Sus scrofa, Tursiops truncatus, Echinops telfairi, Pteropus vampyrus, Bos taurus, Otolemur garnettii, Canis familiaris, Equus caballus, Felis catus, Choloepus hoffmanni, Sorex araneus, Erinaceus europaeus, Cavia porcellus, Mus musculus, Rattus norvegicus, Spermophilus tridecemlineatus, Homo sapiens
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.): Pax-5(2.49E-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 TCTGGCATTTAGG CCTAAATGCCAGA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12 13
A 0 0 0 1 1 0 20 0 0 0 21 0 1
C 6 21 0 0 0 21 0 0 5 6 0 0 3
G 0 0 0 20 20 0 0 5 0 0 0 21 15
T 15 0 21 0 0 0 1 16 16 15 0 0 2
T C T G G C A T T T A G G
1 2 3 4 5 6 7 8 9 10 11 12 13
A 2 0 0 15 16 16 1 0 0 0 21 0 15
C 15 21 0 0 0 5 0 0 20 20 0 0 0
G 3 0 0 6 5 0 0 21 0 0 0 21 6
T 1 0 21 0 0 0 20 0 1 1 0 0 0
C C T A A A T G C C A G 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
ENSG00000020129_PTRO Orthologue Pan troglodytes chr1:36,463,585-36,463,597 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_MMUL Orthologue Macaca mulatta chr1:38,372,077-38,372,089 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_PCAP Orthologue Procavia capensis ENSG00000020129_PCAP:207-219 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_LAFR Orthologue Loxodonta africana scaffold_12453:2,785-2,797 – TCTGGCATTTAGG + CCTAAATGCCAGA
ENSG00000020129_SSCR Orthologue Sus scrofa ENSG00000020129_SSCR:1,176-1,188 + CCTGGCAGCCAGC – GCTGGCTGCCAGG
ENSG00000020129_TTRU Orthologue Tursiops truncatus ENSG00000020129_TTRU:591-603 + CCTAGCTTCCAGT – ACTGGAAGCTAGG
ENSG00000020129_ETEL Orthologue Echinops telfairi scaffold_160234:15,777-15,789 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_PVAM Orthologue Pteropus vampyrus ENSG00000020129_PVAM:257-269 – CCTGACAGTCAGA + TCTGACTGTCAGG
ENSG00000020129_BTAU Orthologue Bos taurus chr3:77,319,577-77,319,589 – TCTGGCATTTAGG + CCTAAATGCCAGA
ENSG00000020129_OGAR Orthologue Otolemur garnettii ENSG00000020129_OGAR:487-499 + CCTGGCAGCCAGT – ACTGGCTGCCAGG
ENSG00000020129_CFAM Orthologue Canis familiaris chr15:9,594,272-9,594,284 – TCTGGCATTTAGG + CCTAAATGCCAGA
ENSG00000020129_ECAB Orthologue Equus caballus ENSG00000020129_ECAB:203-215 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_FCAT Orthologue Felis catus ENSG00000020129_FCAT:1,236-1,248 + CCTGGCAGCCAGC – GCTGGCTGCCAGG
ENSG00000020129_CHOF Orthologue Choloepus hoffmanni ENSG00000020129_CHOF:200-212 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_SARA Orthologue Sorex araneus ENSG00000020129_SARA:67-79 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_EEUR Orthologue Erinaceus europaeus ENSG00000020129_EEUR:200-212 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129_CPOR Orthologue Cavia porcellus ENSG00000020129_CPOR:535-547 + CCTGGCAGCCAGC – GCTGGCTGCCAGG
ENSG00000020129_MMUS Orthologue Mus musculus chr4:126,257,334-126,257,346 – TCTGGCATTTAGG + CCTAAATGCCAGA
ENSG00000020129_RNOR Orthologue Rattus norvegicus chr5:146,168,456-146,168,468 – TCTGGCATTTAGG + CCTAAATGCCAGA
ENSG00000020129_STRI Orthologue Spermophilus tridecemlineatus ENSG00000020129_STRI:200-212 + TCTGGCATTTAGG – CCTAAATGCCAGA
ENSG00000020129 Target Homo sapiens chr1:35,794,360-35,794,372 + TCTGGCATTTAGG – CCTAAATGCCAGA

Questions or comments: cisred@bcgsc.ca