FILTERS:
pvalue:1.0
Motif craCele115084
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 < 1.0
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 craCele115084
Discovery p-value 4.95E-01
Motif location CHROMOSOME_I: 6,215,596-6,215,613 (-) (18 bp)
Search region location CHROMOSOME_I: 6,214,578-6,215,793 (-) (1,216 bp)
Assembly C.elegans, Ensembl v45 (WS170)
Found in 4 species: C elegans, C remanei, C brenneri, C briggsae
Found with
'De Novo' motif group ID crtCele: 115, 499
Similar to
(annotation p-value)		 There are 0 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (0 annot.): none
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 No annotation-based modules exist in this database.
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence CnnAnGCGCCTTTAAAmn nkTTTAAAGGCGCnTnnG
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
A 0 1 1 3 1 0 0 0 1 0 0 0 0 4 4 3 2 1
C 3 2 1 0 1 0 4 0 3 4 0 0 0 0 0 0 2 0
G 1 1 0 1 0 4 0 4 0 0 0 0 0 0 0 1 0 2
T 0 0 2 0 2 0 0 0 0 0 4 4 4 0 0 0 0 1
C n n A n G C G C C T T T A A A m n
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
A 1 0 0 0 0 4 4 4 0 0 0 0 0 2 0 2 0 0
C 2 0 1 0 0 0 0 0 0 0 4 0 4 0 1 0 1 1
G 0 2 0 0 0 0 0 0 4 3 0 4 0 1 0 1 2 3
T 1 2 3 4 4 0 0 0 0 1 0 0 0 1 3 1 1 0
n k T T T A A A G G C G C n T n n G
Site Sequence Stack
Ensembl gene ID Type Species Position Std (+)Sequence Std (-)Sequence
T08B2.9a Target C elegans CHROMOSOME_I:6,215,596-6,215,613 + CCTACGCGCCTTTAAGAG – CTCTTAAAGGCGCGTAGG
T08B2.9a_Crem_c1 Orthologue C remanei supercontigs.fa.Contig9:201,133-201,150 – CCTATGCGCCTTTAAACT + AGTTTAAAGGCGCATAGG
T08B2.9a_Cbre_c1 Orthologue C brenneri supercontigs.fa.Contig112:167,244-167,261 – GAAGAGCGACTTTAAAAA + TTTTTAAAGTCGCTCTTC
T08B2.9a_Cbri_c1 Orthologue C briggsae assembly.fasta.chrI:7,479,664-7,479,681 + CGCATGCGCCTTTAAACG – CGTTTAAAGGCGCATGCG

Questions or comments: cisred@bcgsc.ca