cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000066319 > craMmus427577

Motif craMmus427577

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	craMmus427577
Discovery p-value	1.44E-02
Motif location	chr9: 110,687,470-110,687,488 (-) (19 bp)
Search region location	chr9: 110,687,216-110,689,371 (-) (2,156 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	7 species: Mus musculus, Bos taurus, Canis familiaris, Homo sapiens, Macaca mulatta, Otolemur garnettii, Pan troglodytes
Found with	Consensus.omops, Consensus.zmops, MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 4 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (4 annot.): B-Myb(1.56E-04) , Smad1(5.15E-04) , E12(7.31E-04) , ALF1A(8.60E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	No annotation-based modules contain this motif. No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

ACAAAGGTCAGTTGrnTCy

rGAnyCAACTGACCTTTGT

Position frequency matrix

	1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19
A	7	0	7	7	7	0	0	0	0	7	0	0	0	0	4	1	0	0	0
C	0	7	0	0	0	0	0	0	7	0	0	0	0	0	0	3	0	6	3
G	0	0	0	0	0	7	7	0	0	0	7	0	0	7	3	1	1	0	0
T	0	0	0	0	0	0	0	7	0	0	0	7	7	0	0	2	6	1	4
	A	C	A	A	A	G	G	T	C	A	G	T	T	G	r	n	T	C	y

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19
A	4	1	6	2	0	0	7	7	0	0	0	7	0	0	0	0	0	0	0
C	0	0	1	1	3	7	0	0	7	0	0	0	7	7	0	0	0	0	0
G	3	6	0	3	0	0	0	0	0	0	7	0	0	0	0	0	0	7	0
T	0	0	0	1	4	0	0	0	0	7	0	0	0	0	7	7	7	0	7
	r	G	A	n	y	C	A	A	C	T	G	A	C	C	T	T	T	G	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
ENSMUSG00000066319	Target	Mus musculus	chr9:110,687,470-110,687,488	+	ACAAAGGTCAGTTGAGTCT	–	AGACTCAACTGACCTTTGT
ENSMUSG00000066319_BTAU	Orthologue	Bos taurus	chr22:42,676,623-42,676,641	–	ACAAAGGTCAGTTGATTCT	+	AGAATCAACTGACCTTTGT
ENSMUSG00000066319_CFAM	Orthologue	Canis familiaris	chr20:45,201,616-45,201,634	+	ACAAAGGTCAGTTGAAGTT	–	AACTTCAACTGACCTTTGT
ENSMUSG00000066319_HSAP	Orthologue	Homo sapiens	chr3:46,514,380-46,514,398	–	ACAAAGGTCAGTTGGCTCC	+	GGAGCCAACTGACCTTTGT
ENSMUSG00000066319_MMUL	Orthologue	Macaca mulatta	SCAFFOLD110298:388-406	–	ACAAAGGTCAGTTGGCTCC	+	GGAGCCAACTGACCTTTGT
ENSMUSG00000066319_OGAR	Orthologue	Otolemur garnettii	ENSMUSG00000066319_OGAR:54-72	–	ACAAAGGTCAGTTGATTCT	+	AGAATCAACTGACCTTTGT
ENSMUSG00000066319_PTRO	Orthologue	Pan troglodytes	chr2:47,862,292-47,862,310	–	ACAAAGGTCAGTTGGCTCC	+	GGAGCCAACTGACCTTTGT

Export Site Sequences Stack