cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000057149 > craMmus391911

Motif craMmus391911

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	craMmus391911
Discovery p-value	2.79E-03
Motif location	chr2: 111,603,945-111,603,950 (+) (6 bp)
Search region location	chr2: 111,603,538-111,605,237 (+) (1,700 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	17 species: Mus musculus, Canis familiaris, Callithrix jacchus, Dasypus novemcinctus, Danio rerio, Equus caballus, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Xenopus tropicalis
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 10 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (10 annot.): Pbx(5.41E-05) , OCA-B(1.29E-04) , POU2F1(1.47E-04) , POU1F1(1.82E-04) , POU3F2(3.60E-04) ... ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 4 (C-EBPalpha__POU1F1) 40 (Hlf__POU1F1) 43 (MEF-2A__POU3F2) 340 (Cdx-2__POU3F2) 388 (E4BP4__POU2F1) 476 (E4BP4__POU3F2) 497 (E4BP4__POU1F1) 577 (MEF-2A__OCA-B) 708 (E4BP4__OCA-B) 731 (POU3F2__Pbx) 800 (POU2F1__TEF) 871 (MEF-2A__POU2F1) 888 (Hlf__OCA-B) 916 (Cdx-2__POU2F1) 1044 (Cdx-2__POU1F1) 1077 (Cdx-2__OCA-B) 1127 (IRF-1__POU2F1) 1159 (Hlf__POU2F1) 1167 (POU3F2__TEF) 1193 (OCA-B__TEF) 1196 (POU1F1__TEF) 1202 (C-EBPalpha__POU2F1) 1232 (IRF-1__OCA-B) 1251 (POU2F1__Pbx) 1268 (POU1F1__Pbx) 1285 (IRF-1__POU1F1) 1382 (Hlf__POU3F2) 1389 (C-EBPalpha__POU3F2) 1578 (IRF-1__POU3F2) 1584 (MEF-2A__POU1F1) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

ATAATT

AATTAT

Position frequency matrix

	1	2	3	4	5	6
A	17	0	17	17	0	0
C	0	0	0	0	0	0
G	0	0	0	0	0	0
T	0	17	0	0	17	17
	A	T	A	A	T	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6
A	17	17	0	0	17	0
C	0	0	0	0	0	0
G	0	0	0	0	0	0
T	0	0	17	17	0	17
	A	A	T	T	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
ENSMUSG00000057149	Target	Mus musculus	chr2:111,603,945-111,603,950	+	ATAATT	–	AATTAT
ENSMUSG00000057149_CFAM	Orthologue	Canis familiaris	chr10:19,273,316-19,273,321	–	ATAATT	+	AATTAT
ENSMUSG00000057149_CJAC	Orthologue	Callithrix jacchus	ENSMUSG00000057149_CJAC:26-31	+	ATAATT	–	AATTAT
ENSMUSG00000057149_DNOV	Orthologue	Dasypus novemcinctus	scaffold_89437:1,923-1,928	–	ATAATT	+	AATTAT
ENSMUSG00000057149_DRER	Orthologue	Danio rerio	chr15:35,978,193-35,978,198	–	ATAATT	+	AATTAT
ENSMUSG00000057149_ECAB	Orthologue	Equus caballus	ENSMUSG00000057149_ECAB:85-90	+	ATAATT	–	AATTAT
ENSMUSG00000057149_ETEL	Orthologue	Echinops telfairi	scaffold_57819:171-176	–	ATAATT	+	AATTAT
ENSMUSG00000057149_GGAL	Orthologue	Gallus gallus	chr5:2,408,966-2,408,971	–	ATAATT	+	AATTAT
ENSMUSG00000057149_HSAP	Orthologue	Homo sapiens	chr14:19,554,062-19,554,067	–	ATAATT	+	AATTAT
ENSMUSG00000057149_LAFR	Orthologue	Loxodonta africana	scaffold_3200:114,901-114,906	–	ATAATT	+	AATTAT
ENSMUSG00000057149_MDOM	Orthologue	Monodelphis domestica	scaffold_12:31,913,829-31,913,834	–	ATAATT	+	AATTAT
ENSMUSG00000057149_MMUL	Orthologue	Macaca mulatta	SCAFFOLD118315:292-297	+	ATAATT	–	AATTAT
ENSMUSG00000057149_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_128745:164-169	–	ATAATT	+	AATTAT
ENSMUSG00000057149_PTRO	Orthologue	Pan troglodytes	19_random:14,224,286-14,224,291	+	ATAATT	–	AATTAT
ENSMUSG00000057149_RNOR	Orthologue	Rattus norvegicus	chr3:97,197,710-97,197,715	+	ATAATT	–	AATTAT
ENSMUSG00000057149_SARA	Orthologue	Sorex araneus	ENSMUSG00000057149_SARA:388-393	+	ATAATT	–	AATTAT
ENSMUSG00000057149_XTRO	Orthologue	Xenopus tropicalis	scaffold_786:552,528-552,533	+	ATAATT	–	AATTAT

Export Site Sequences Stack