cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000062195 > craMmus298057

Motif craMmus298057

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	craMmus298057
Discovery p-value	2.79E-03
Motif location	chr19: 13,183,879-13,183,884 (-) (6 bp)
Search region location	chr19: 13,180,690-13,184,300 (-) (3,611 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	12 species: Mus musculus, Bos taurus, Danio rerio, Echinops telfairi, Homo sapiens, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Tetraodon nigroviridis, Xenopus tropicalis
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 8 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (8 annot.): MEF-2A(5.81E-05) , TEF(1.36E-04) , aMEF-2(2.01E-04) , POU2F1(3.52E-04) , OCA-B(4.17E-04) ... ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 53 (POU1F1__aMEF-2) 139 (OCA-B__POU2F1) 522 (POU1F1__POU2F1) 577 (MEF-2A__OCA-B) 800 (POU2F1__TEF) 903 (TEF__aMEF-2) 1193 (OCA-B__TEF) 1196 (POU1F1__TEF) 1290 (MEF-2A__TEF) 1391 (OCA-B__aMEF-2) 1539 (TEF__TEF) 1584 (MEF-2A__POU1F1) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

TATATA

Position frequency matrix

	1	2	3	4	5	6
A	0	12	0	9	0	12
C	0	0	0	0	0	0
G	0	0	0	3	0	0
T	12	0	12	0	12	0
	T	A	T	A	T	A

Transfac

Jaspar

CSV

	1	2	3	4	5	6
A	0	12	0	12	0	12
C	0	0	3	0	0	0
G	0	0	0	0	0	0
T	12	0	9	0	12	0
	T	A	T	A	T	A

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
ENSMUSG00000062195	Target	Mus musculus	chr19:13,183,879-13,183,884	+	TATATA	–	TATATA
ENSMUSG00000062195_BTAU	Orthologue	Bos taurus	chr1:22,299,556-22,299,561	+	TATATA	–	TATATA
ENSMUSG00000062195_DRER	Orthologue	Danio rerio	chr21:14,224,500-14,224,505	–	TATATA	+	TATATA
ENSMUSG00000062195_ETEL	Orthologue	Echinops telfairi	scaffold_292960:4,281-4,286	+	TATATA	–	TATATA
ENSMUSG00000062195_HSAP	Orthologue	Homo sapiens	chr11:57,843,317-57,843,322	–	TATGTA	+	TACATA
ENSMUSG00000062195_MDOM	Orthologue	Monodelphis domestica	scaffold_33:18,898,167-18,898,172	–	TATGTA	+	TACATA
ENSMUSG00000062195_MMUL	Orthologue	Macaca mulatta	SCAFFOLD75060:91,930-91,935	–	TATATA	+	TATATA
ENSMUSG00000062195_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_212112:62,561-62,566	+	TATATA	–	TATATA
ENSMUSG00000062195_PTRO	Orthologue	Pan troglodytes	chr9:58,760,114-58,760,119	–	TATGTA	+	TACATA
ENSMUSG00000062195_RNOR	Orthologue	Rattus norvegicus	chr1:216,445,884-216,445,889	+	TATATA	–	TATATA
ENSMUSG00000062195_TNIG	Orthologue	Tetraodon nigroviridis	chr16:4,609,987-4,609,992	+	TATATA	–	TATATA
ENSMUSG00000062195_XTRO	Orthologue	Xenopus tropicalis	scaffold_786:518,271-518,276	–	TATATA	+	TATATA

Export Site Sequences Stack