cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000051680 > craMmus205483

Motif craMmus205483

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	craMmus205483
Discovery p-value	2.79E-03
Motif location	chr7: 102,569,350-102,569,359 (-) (10 bp)
Search region location	chr7: 102,569,262-102,571,081 (-) (1,820 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	18 species: Mus musculus, Canis familiaris, Callithrix jacchus, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, 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 1 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (1 annot.): NF-1(7.90E-05) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 505 (NF-1__Pax-5) 892 (E2F-1__NF-1) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

CCAAwATGsA

TwCATsTTGG

Position frequency matrix

	1	2	3	4	5	6	7	8	9	10
A	1	0	18	17	0	18	0	0	8	18
C	16	15	0	0	10	0	0	0	0	0
G	0	0	0	1	8	0	0	18	0	0
T	1	3	0	0	0	0	18	0	10	0
	C	C	A	A	s	A	T	G	w	A

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9	10
A	0	10	0	18	0	0	0	0	3	1
C	0	0	18	0	0	8	1	0	0	0
G	0	0	0	0	0	10	0	0	15	16
T	18	8	0	0	18	0	17	18	0	1
	T	w	C	A	T	s	T	T	G	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
ENSMUSG00000051680	Target	Mus musculus	chr7:102,569,350-102,569,359	+	CCAACATGTA	–	TACATGTTGG
ENSMUSG00000051680_CFAM	Orthologue	Canis familiaris	chr21:33,339,855-33,339,864	–	CCAACATGTA	+	TACATGTTGG
ENSMUSG00000051680_CJAC	Orthologue	Callithrix jacchus	ENSMUSG00000051680_CJAC:603-612	–	CCAACATGTA	+	TACATGTTGG
ENSMUSG00000051680_DNOV	Orthologue	Dasypus novemcinctus	scaffold_81729:6,278-6,287	+	CCAACATGTA	–	TACATGTTGG
ENSMUSG00000051680_ECAB	Orthologue	Equus caballus	ENSMUSG00000051680_ECAB:587-596	–	CCAACATGTA	+	TACATGTTGG
ENSMUSG00000051680_ETEL	Orthologue	Echinops telfairi	scaffold_320110:4,636-4,645	–	TCAAGATGAA	+	TTCATCTTGA
ENSMUSG00000051680_GGAL	Orthologue	Gallus gallus	chr5:72,898-72,907	–	ATAACATGAA	+	TTCATGTTAT
ENSMUSG00000051680_HSAP	Orthologue	Homo sapiens	chr11:6,762,783-6,762,792	–	CTAAGATGAA	+	TTCATCTTAG
ENSMUSG00000051680_LAFR	Orthologue	Loxodonta africana	scaffold_17793:23,928-23,937	+	CCAAGATGTA	–	TACATCTTGG
ENSMUSG00000051680_MLUC	Orthologue	Myotis lucifugus	ENSMUSG00000051680_MLUC:713-722	–	CCAACATGTA	+	TACATGTTGG
ENSMUSG00000051680_MMUL	Orthologue	Macaca mulatta	SCAFFOLD106612:13,615-13,624	–	CCAACATGTA	+	TACATGTTGG
ENSMUSG00000051680_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_119652:4,531-4,540	–	CCAACATGTA	+	TACATGTTGG
ENSMUSG00000051680_OGAR	Orthologue	Otolemur garnettii	ENSMUSG00000051680_OGAR:200-209	–	CCAAGATGAA	+	TTCATCTTGG
ENSMUSG00000051680_PPYG	Orthologue	Pongo pygmaeus	ENSMUSG00000051680_PPYG:466-475	–	CTAAGATGAA	+	TTCATCTTAG
ENSMUSG00000051680_PTRO	Orthologue	Pan troglodytes	chr9:6,907,619-6,907,628	–	CCAAGATGAA	+	TTCATCTTGG
ENSMUSG00000051680_RNOR	Orthologue	Rattus norvegicus	chr1:163,930,164-163,930,173	+	CCAAGATGAA	–	TTCATCTTGG
ENSMUSG00000051680_SSCR	Orthologue	Sus scrofa	ENSMUSG00000051680_SSCR:539-548	–	CCAGCATGTA	+	TACATGCTGG
ENSMUSG00000051680_TBEL	Orthologue	Tupaia belangeri	ENSMUSG00000051680_TBEL:387-396	–	CCAAGATGAA	+	TTCATCTTGG

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