cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000054711 > craMmus67077

Motif craMmus67077

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	craMmus67077
Discovery p-value	2.79E-03
Motif location	chr17: 22,254,955-22,254,960 (+) (6 bp)
Search region location	chr17: 22,253,533-22,255,232 (+) (1,700 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	26 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Spermophilus tridecemlineatus, Tupaia belangeri, Xenopus tropicalis
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 5 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (5 annot.): E4BP4(7.35E-05) , C-EBPgamma(2.71E-04) , FOXP1a(5.67E-04) , aMEF-2(6.14E-04) , Pax-2(8.76E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 69 (E4BP4__E4BP4) 80 (C-EBPgamma__Nkx6-2) 388 (E4BP4__POU2F1) 404 (E4BP4__SRY) 476 (E4BP4__POU3F2) 578 (E4BP4__Nkx6-2) 780 (C-EBPgamma__POU2F1) 975 (C-EBPgamma__FOXP3) 999 (CAR__E4BP4) 1153 (C-EBPgamma__POU3F2) 1192 (C-EBPgamma__FOXP1a) 1403 (C-EBPgamma__E4BP4) 1434 (E4BP4__FOXP1a) 1443 (Cdx-2__E4BP4) 1468 (C-EBPgamma__Cdx-2) 1498 (E4BP4__FOXP3) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

TTATAT

ATATAA

Position frequency matrix

	1	2	3	4	5	6
A	0	0	26	0	26	0
C	0	0	0	0	0	0
G	0	0	0	0	0	0
T	26	26	0	26	0	26
	T	T	A	T	A	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6
A	26	0	26	0	26	26
C	0	0	0	0	0	0
G	0	0	0	0	0	0
T	0	26	0	26	0	0
	A	T	A	T	A	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
ENSMUSG00000054711	Target	Mus musculus	chr17:22,254,955-22,254,960	+	TTATAT	–	ATATAA
ENSMUSG00000054711_BTAU	Orthologue	Bos taurus	chr25:194,646-194,651	–	TTATAT	+	ATATAA
ENSMUSG00000054711_CFAM	Orthologue	Canis familiaris	chr6:41,468,413-41,468,418	+	TTATAT	–	ATATAA
ENSMUSG00000054711_CHOF	Orthologue	Choloepus hoffmanni	ENSMUSG00000054711_CHOF:168-173	+	TTATAT	–	ATATAA
ENSMUSG00000054711_CJAC	Orthologue	Callithrix jacchus	ENSMUSG00000054711_CJAC:437-442	+	TTATAT	–	ATATAA
ENSMUSG00000054711_CPOR	Orthologue	Cavia porcellus	ENSMUSG00000054711_CPOR:710-715	+	TTATAT	–	ATATAA
ENSMUSG00000054711_DNOV	Orthologue	Dasypus novemcinctus	scaffold_108383:5,281-5,286	+	TTATAT	–	ATATAA
ENSMUSG00000054711_ECAB	Orthologue	Equus caballus	ENSMUSG00000054711_ECAB:412-417	+	TTATAT	–	ATATAA
ENSMUSG00000054711_EEUR	Orthologue	Erinaceus europaeus	ENSMUSG00000054711_EEUR:351-356	+	TTATAT	–	ATATAA
ENSMUSG00000054711_ETEL	Orthologue	Echinops telfairi	scaffold_247450:3,661-3,666	–	TTATAT	+	ATATAA
ENSMUSG00000054711_FCAT	Orthologue	Felis catus	ENSMUSG00000054711_FCAT:865-870	+	TTATAT	–	ATATAA
ENSMUSG00000054711_GGAL	Orthologue	Gallus gallus	chr14:9,392,040-9,392,045	–	TTATAT	+	ATATAA
ENSMUSG00000054711_HSAP	Orthologue	Homo sapiens	chr16:2,592,849-2,592,854	–	TTATAT	+	ATATAA
ENSMUSG00000054711_LAFR	Orthologue	Loxodonta africana	scaffold_15721:7,002-7,007	–	TTATAT	+	ATATAA
ENSMUSG00000054711_MDOM	Orthologue	Monodelphis domestica	scaffold_49:7,594,718-7,594,723	+	TTATAT	–	ATATAA
ENSMUSG00000054711_MLUC	Orthologue	Myotis lucifugus	ENSMUSG00000054711_MLUC:956-961	+	TTATAT	–	ATATAA
ENSMUSG00000054711_MMUL	Orthologue	Macaca mulatta	SCAFFOLD95462:8,628-8,633	–	TTATAT	+	ATATAA
ENSMUSG00000054711_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_124184:4,044-4,049	+	TTATAT	–	ATATAA
ENSMUSG00000054711_PCAP	Orthologue	Procavia capensis	ENSMUSG00000054711_PCAP:697-702	+	TTATAT	–	ATATAA
ENSMUSG00000054711_PTRO	Orthologue	Pan troglodytes	chr18:2,406,739-2,406,744	–	TTATAT	+	ATATAA
ENSMUSG00000054711_RNOR	Orthologue	Rattus norvegicus	chr10:13,324,782-13,324,787	+	TTATAT	–	ATATAA
ENSMUSG00000054711_SARA	Orthologue	Sorex araneus	ENSMUSG00000054711_SARA:826-831	+	TTATAT	–	ATATAA
ENSMUSG00000054711_SSCR	Orthologue	Sus scrofa	ENSMUSG00000054711_SSCR:1,337-1,342	+	TTATAT	–	ATATAA
ENSMUSG00000054711_STRI	Orthologue	Spermophilus tridecemlineatus	ENSMUSG00000054711_STRI:735-740	+	TTATAT	–	ATATAA
ENSMUSG00000054711_TBEL	Orthologue	Tupaia belangeri	ENSMUSG00000054711_TBEL:987-992	+	TTATAT	–	ATATAA
ENSMUSG00000054711_XTRO	Orthologue	Xenopus tropicalis	scaffold_254:702,293-702,298	–	TTATAT	+	ATATAA

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