cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000070411 > craMmus60203

Motif craMmus60203

More information about this gene at Ensembl.org

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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	craMmus60203
Discovery p-value	2.79E-03
Motif location	chr7: 104,075,298-104,075,305 (-) (8 bp)
Search region location	chr7: 104,074,628-104,076,868 (-) (2,241 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	12 species: Mus musculus, Bos taurus, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 2 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (2 annot.): POU3F2(2.08E-05) , POU1F1(1.81E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 53 (POU1F1__aMEF-2) 79 (Nkx6-2__POU3F2) 399 (POU3F2__aMEF-2) 611 (Chx10__POU1F1) 858 (HNF-3__POU3F2) 944 (POU3F2__RSRFC4) 1003 (HNF-3__POU1F1) 1069 (POU1F1__POU6F1_(c2)) 1104 (Nkx6-2__POU1F1) 1110 (FOXJ2__POU1F1) 1233 (FOXJ2__POU3F2) 1336 (POU3F2__POU6F1_(c2)) 1363 (POU1F1__RSRFC4) 1442 (Chx10__POU3F2) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

rATGAATA

TATTCATy

Position frequency matrix

	1	2	3	4	5	6	7	8
A	7	12	0	0	8	9	0	9
C	0	0	0	0	4	0	0	0
G	5	0	0	12	0	0	0	3
T	0	0	12	0	0	3	12	0
	r	A	T	G	A	A	T	A

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	0	12	3	0	0	12	0	0
C	3	0	0	0	12	0	0	5
G	0	0	0	4	0	0	0	0
T	9	0	9	8	0	0	12	7
	T	A	T	T	C	A	T	y

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
ENSMUSG00000070411	Target	Mus musculus	chr7:104,075,298-104,075,305	+	AATGAATG	–	CATTCATT
ENSMUSG00000070411_BTAU	Orthologue	Bos taurus	chr2:592,786-592,793	–	AATGAATA	+	TATTCATT
ENSMUSG00000070411_DNOV	Orthologue	Dasypus novemcinctus	scaffold_61181:1,952-1,959	–	GATGCATA	+	TATGCATC
ENSMUSG00000070411_DRER	Orthologue	Danio rerio	chr15:36,004,333-36,004,340	–	AATGATTA	+	TAATCATT
ENSMUSG00000070411_ETEL	Orthologue	Echinops telfairi	scaffold_137198:834-841	+	AATGATTG	–	CAATCATT
ENSMUSG00000070411_HSAP	Orthologue	Homo sapiens	chr11:7,775,425-7,775,432	+	AATGATTA	–	TAATCATT
ENSMUSG00000070411_LAFR	Orthologue	Loxodonta africana	scaffold_7771:44,207-44,214	+	GATGAATG	–	CATTCATC
ENSMUSG00000070411_MDOM	Orthologue	Monodelphis domestica	scaffold_33:17,995,387-17,995,394	+	AATGAATA	–	TATTCATT
ENSMUSG00000070411_MMUL	Orthologue	Macaca mulatta	SCAFFOLD105816:46,145-46,152	–	GATGCATA	+	TATGCATC
ENSMUSG00000070411_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_207842:14,468-14,475	–	GATGCATA	+	TATGCATC
ENSMUSG00000070411_PTRO	Orthologue	Pan troglodytes	chr9:7,895,069-7,895,076	+	GATGCATA	–	TATGCATC
ENSMUSG00000070411_RNOR	Orthologue	Rattus norvegicus	chr1:166,086,653-166,086,660	–	AATGAATA	+	TATTCATT

Export Site Sequences Stack