cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000048197 > craMmus181330

Motif craMmus181330

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 < 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	craMmus181330
Discovery p-value	7.14E-02
Motif location	chr2: 87,738,929-87,738,937 (+) (9 bp)
Search region location	chr2: 87,738,345-87,740,092 (+) (1,748 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	11 species: Mus musculus, Canis familiaris, Danio rerio, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Sus scrofa, Xenopus tropicalis
Found with	MEME.tcm
'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: (5 annot.): Nkx2-2(1.08E-04) , Nkx3-1(1.43E-04) , CUTL1(2.49E-04) , E4BP4(3.15E-04) , POU1F1(6.46E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	No annotation-based modules contain this motif. No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

ATTrsTAAT

ATTAwyAAT

Position frequency matrix

	1	2	3	4	5	6	7	8	9
A	11	0	1	7	0	1	10	11	0
C	0	0	0	0	7	0	0	0	0
G	0	0	0	4	4	0	0	0	0
T	0	11	10	0	0	10	1	0	11
	A	T	T	n	n	T	A	A	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9
A	11	0	1	10	0	0	10	11	0
C	0	0	0	0	4	4	0	0	0
G	0	0	0	0	7	0	0	0	0
T	0	11	10	1	0	7	1	0	11
	A	T	T	A	n	n	A	A	T

Transfac

Jaspar

CSV

In the table below, bases highlighted on the Target sequence will link to a single nucleotide polymoprhism in NCBI's dbSNP.

Ensembl gene ID	Type	Species	Position	Std	(+)Sequence	Std	(-)Sequence
Site Sequence Stack
ENSMUSG00000048197	Target	Mus musculus	chr2:87,738,929-87,738,937	+	ATTACTTAT	–	ATAAGTAAT
ENSMUSG00000048197_CFAM	Orthologue	Canis familiaris	chr18:43,099,709-43,099,717	–	ATTACTAAT	+	ATTAGTAAT
ENSMUSG00000048197_DRER	Orthologue	Danio rerio	chr15:36,011,065-36,011,073	–	ATTACTAAT	+	ATTAGTAAT
ENSMUSG00000048197_HSAP	Orthologue	Homo sapiens	chr11:55,438,578-55,438,586	+	ATTGGTAAT	–	ATTACCAAT
ENSMUSG00000048197_LAFR	Orthologue	Loxodonta africana	scaffold_3668:115,641-115,649	–	ATTACTAAT	+	ATTAGTAAT
ENSMUSG00000048197_MDOM	Orthologue	Monodelphis domestica	scaffold_33:16,652,050-16,652,058	–	ATAACTAAT	+	ATTAGTTAT
ENSMUSG00000048197_MMUL	Orthologue	Macaca mulatta	SCAFFOLD115116:156,640-156,648	+	ATTACAAAT	–	ATTTGTAAT
ENSMUSG00000048197_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_173414:65,168-65,176	+	ATTGGTAAT	–	ATTACCAAT
ENSMUSG00000048197_PTRO	Orthologue	Pan troglodytes	9_random:27,081,400-27,081,408	+	ATTGGTAAT	–	ATTACCAAT
ENSMUSG00000048197_SSCR	Orthologue	Sus scrofa	ENSMUSG00000048197_SSCR:524-532	–	ATTACTAAT	+	ATTAGTAAT
ENSMUSG00000048197_XTRO	Orthologue	Xenopus tropicalis	scaffold_10:4,102,061-4,102,069	+	ATTGGTAAT	–	ATTACCAAT

Export Site Sequences Stack