cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000070854 > craMmus305653

Motif craMmus305653

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	craMmus305653
Discovery p-value	2.79E-03
Motif location	chr2: 87,152,285-87,152,290 (+) (6 bp)
Search region location	chr2: 87,151,007-87,152,706 (+) (1,700 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	18 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Ornithorhynchus anatinus, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Spermophilus tridecemlineatus, Tupaia belangeri, Tetraodon nigroviridis
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 6 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (6 annot.): HNF-6(2.59E-04) , COMP1(3.69E-04) , Pax-6(6.42E-04) , Sox9(6.45E-04) , POU3F1(6.93E-04) ... ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 15 (COMP1__HNF-1alpha) 50 (HNF-1alpha__HNF-6) 62 (COMP1__CUTL1) 87 (COMP1__HNF-6) 136 (HNF-6__POU3F1) 216 (COMP1__aMEF-2) 332 (CUTL1__HNF-6) 373 (HNF-6__HNF-6) 434 (COMP1__POU2F1) 535 (COMP1__POU3F1) 624 (COMP1__Nkx6-2) 759 (HNF-6__POU2F1) 895 (HNF-6__Nkx6-2) 1071 (COMP1__S8) 1106 (HNF-6__aMEF-2) 1172 (COMP1__Pbx1a) 1304 (HNF-6__Pbx1a) 1374 (HNF-6__S8) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

TGAATT

AATTCA

Position frequency matrix

	1	2	3	4	5	6
A	0	0	15	18	0	0
C	0	0	0	0	0	0
G	0	18	0	0	0	0
T	18	0	3	0	18	18
	T	G	A	A	T	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6
A	18	18	0	3	0	18
C	0	0	0	0	18	0
G	0	0	0	0	0	0
T	0	0	18	15	0	0
	A	A	T	T	C	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
ENSMUSG00000070854	Target	Mus musculus	chr2:87,152,285-87,152,290	+	TGAATT	–	AATTCA
ENSMUSG00000070854_BTAU	Orthologue	Bos taurus	chr2:605,431-605,436	+	TGAATT	–	AATTCA
ENSMUSG00000070854_CFAM	Orthologue	Canis familiaris	chr18:42,957,803-42,957,808	+	TGAATT	–	AATTCA
ENSMUSG00000070854_DNOV	Orthologue	Dasypus novemcinctus	scaffold_56908:351-356	+	TGAATT	–	AATTCA
ENSMUSG00000070854_DRER	Orthologue	Danio rerio	chr15:35,899,591-35,899,596	–	TGAATT	+	AATTCA
ENSMUSG00000070854_EEUR	Orthologue	Erinaceus europaeus	ENSMUSG00000070854_EEUR:477-482	+	TGTATT	–	AATACA
ENSMUSG00000070854_FRUB	Orthologue	Fugu rubripes	chrUn:304,389,433-304,389,438	–	TGAATT	+	AATTCA
ENSMUSG00000070854_HSAP	Orthologue	Homo sapiens	chr11:55,492,971-55,492,976	–	TGAATT	+	AATTCA
ENSMUSG00000070854_LAFR	Orthologue	Loxodonta africana	scaffold_8581:46,285-46,290	–	TGAATT	+	AATTCA
ENSMUSG00000070854_MDOM	Orthologue	Monodelphis domestica	scaffold_33:17,611,270-17,611,275	–	TGAATT	+	AATTCA
ENSMUSG00000070854_MMUL	Orthologue	Macaca mulatta	SCAFFOLD126104:5,316-5,321	+	TGAATT	–	AATTCA
ENSMUSG00000070854_OANA	Orthologue	Ornithorhynchus anatinus	ENSMUSG00000070854_OANA:272-277	+	TGTATT	–	AATACA
ENSMUSG00000070854_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_98029:81-86	+	TGAATT	–	AATTCA
ENSMUSG00000070854_PTRO	Orthologue	Pan troglodytes	9_random:27,136,117-27,136,122	–	TGAATT	+	AATTCA
ENSMUSG00000070854_RNOR	Orthologue	Rattus norvegicus	chr3:70,864,910-70,864,915	+	TGAATT	–	AATTCA
ENSMUSG00000070854_STRI	Orthologue	Spermophilus tridecemlineatus	ENSMUSG00000070854_STRI:24-29	+	TGAATT	–	AATTCA
ENSMUSG00000070854_TBEL	Orthologue	Tupaia belangeri	ENSMUSG00000070854_TBEL:492-497	+	TGTATT	–	AATACA
ENSMUSG00000070854_TNIG	Orthologue	Tetraodon nigroviridis	Un_random:119,187,002-119,187,007	+	TGAATT	–	AATTCA

Export Site Sequences Stack