cisRED: cis-regulatory element database

cisRED > C.elegans 4 > gene. Y71H2AM.19 > craCele150512

Motif craCele150512

More information about this gene at Ensembl.org

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	craCele150512
Discovery p-value	4.74E-01
Motif location	CHROMOSOME_III: 2,779,207-2,779,214 (-) (8 bp)
Search region location	CHROMOSOME_III: 2,779,009-2,780,508 (-) (1,500 bp)
Assembly	C.elegans, Ensembl v45 (WS170)
Found in	4 species: C elegans, C remanei, C brenneri, C briggsae
Found with	MotifSampler
'De Novo' motif group ID	OPTICS/BOSS not in a cluster
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

TCAACCCT

AGGGTTGA

Position frequency matrix

	1	2	3	4	5	6	7	8
A	1	0	4	4	0	0	1	0
C	0	4	0	0	4	4	3	0
G	0	0	0	0	0	0	0	0
T	3	0	0	0	0	0	0	4
	T	C	A	A	C	C	C	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	4	0	0	0	0	0	0	3
C	0	0	0	0	0	0	0	0
G	0	3	4	4	0	0	4	0
T	0	1	0	0	4	4	0	1
	A	G	G	G	T	T	G	A

Transfac

Jaspar

CSV

Ensembl gene ID	Type	Species	Position	Std	(+)Sequence	Std	(-)Sequence
Site Sequence Stack
Y71H2AM.19	Target	C elegans	CHROMOSOME_III:2,779,207-2,779,214	+	ACAACCAT	–	ATGGTTGT
Y71H2AM.19_Crem_c1	Orthologue	C remanei	supercontigs.fa.Contig7:1,079,020-1,079,027	–	TCAACCCT	+	AGGGTTGA
Y71H2AM.19_Cbre_c1	Orthologue	C brenneri	supercontigs.fa.Contig12:1,100,492-1,100,499	+	TCAACCCT	–	AGGGTTGA
Y71H2AM.19_Cbri_c1	Orthologue	C briggsae	assembly.fasta.chrIII:4,482,791-4,482,798	+	TCAACCCT	–	AGGGTTGA

Export Site Sequences Stack