cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000070377 > craMmus439901

Motif craMmus439901

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	craMmus439901
Discovery p-value	2.79E-03
Motif location	chr11: 74,289,260-74,289,267 (-) (8 bp)
Search region location	chr11: 74,288,589-74,290,337 (-) (1,749 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	18 species: Mus musculus, Bos taurus, Canis familiaris, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Equus caballus, Erinaceus europaeus, Echinops telfairi, Gallus gallus, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Rattus norvegicus, Sorex araneus, Sus scrofa, Tupaia belangeri
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.): Pax-2(3.25E-04) , Evi-1(6.54E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 307 (Pax-2__Pax-5) 424 (POU3F2__Pax-2) 589 (HOXA5__Pax-2) 607 (CUTL1__Pax-2) 791 (POU2F1__Pax-2) 1132 (Chx10__Pax-2) 1306 (AIRE__Pax-2) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

CATGTAyT

ArTACATG

Position frequency matrix

	1	2	3	4	5	6	7	8
A	0	18	0	0	0	18	0	0
C	16	0	0	0	0	0	10	0
G	0	0	0	18	0	0	0	0
T	2	0	18	0	18	0	8	18
	C	A	T	G	T	A	y	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	18	8	0	18	0	18	0	2
C	0	0	0	0	18	0	0	0
G	0	10	0	0	0	0	0	16
T	0	0	18	0	0	0	18	0
	A	r	T	A	C	A	T	G

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
ENSMUSG00000070377	Target	Mus musculus	chr11:74,289,260-74,289,267	+	CATGTACT	–	AGTACATG
ENSMUSG00000070377_BTAU	Orthologue	Bos taurus	chr19:18,495,375-18,495,382	–	CATGTATT	+	AATACATG
ENSMUSG00000070377_CFAM	Orthologue	Canis familiaris	chr9:50,448,570-50,448,577	–	CATGTACT	+	AGTACATG
ENSMUSG00000070377_CPOR	Orthologue	Cavia porcellus	ENSMUSG00000070377_CPOR:225-232	+	CATGTACT	–	AGTACATG
ENSMUSG00000070377_DNOV	Orthologue	Dasypus novemcinctus	scaffold_40099:7,525-7,532	+	CATGTACT	–	AGTACATG
ENSMUSG00000070377_DRER	Orthologue	Danio rerio	chr15:36,000,599-36,000,606	+	TATGTACT	–	AGTACATA
ENSMUSG00000070377_ECAB	Orthologue	Equus caballus	ENSMUSG00000070377_ECAB:402-409	+	TATGTATT	–	AATACATA
ENSMUSG00000070377_EEUR	Orthologue	Erinaceus europaeus	ENSMUSG00000070377_EEUR:241-248	+	CATGTATT	–	AATACATG
ENSMUSG00000070377_ETEL	Orthologue	Echinops telfairi	scaffold_278722:44,990-44,997	+	CATGTACT	–	AGTACATG
ENSMUSG00000070377_GGAL	Orthologue	Gallus gallus	chr5:53,954-53,961	–	CATGTACT	+	AGTACATG
ENSMUSG00000070377_LAFR	Orthologue	Loxodonta africana	scaffold_8529:46,002-46,009	–	CATGTACT	+	AGTACATG
ENSMUSG00000070377_MDOM	Orthologue	Monodelphis domestica	scaffold_33:19,611,973-19,611,980	–	CATGTATT	+	AATACATG
ENSMUSG00000070377_MMUL	Orthologue	Macaca mulatta	SCAFFOLD2485:1,069-1,076	+	CATGTATT	–	AATACATG
ENSMUSG00000070377_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_203580:6,884-6,891	+	CATGTACT	–	AGTACATG
ENSMUSG00000070377_RNOR	Orthologue	Rattus norvegicus	chr10:61,507,574-61,507,581	–	CATGTACT	+	AGTACATG
ENSMUSG00000070377_SARA	Orthologue	Sorex araneus	ENSMUSG00000070377_SARA:235-242	+	CATGTATT	–	AATACATG
ENSMUSG00000070377_SSCR	Orthologue	Sus scrofa	ENSMUSG00000070377_SSCR:234-241	+	CATGTATT	–	AATACATG
ENSMUSG00000070377_TBEL	Orthologue	Tupaia belangeri	ENSMUSG00000070377_TBEL:876-883	+	CATGTATT	–	AATACATG

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