cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000061975 > craMmus39153

Motif craMmus39153

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	craMmus39153
Discovery p-value	2.79E-03
Motif location	chr7: 104,018,143-104,018,150 (+) (8 bp)
Search region location	chr7: 104,016,356-104,018,466 (+) (2,111 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	13 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, 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 7 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (7 annot.): Sox5(4.25E-05) , HOXA5(7.82E-05) , POU1F1(6.11E-04) , CAR(6.30E-04) , Hlf(7.31E-04) ... ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 339 (HOXA5__S8) 556 (HMG_I__HOXA5) 962 (S8__Sox5) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

TGAATTAw

sTAATTCA

Position frequency matrix

	1	2	3	4	5	6	7	8
A	0	0	13	13	0	4	12	6
C	0	0	0	0	0	0	0	0
G	0	13	0	0	0	0	0	0
T	13	0	0	0	13	9	1	7
	T	G	A	A	T	T	A	w

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	7	1	9	13	0	0	0	13
C	0	0	0	0	0	0	13	0
G	0	0	0	0	0	0	0	0
T	6	12	4	0	13	13	0	0
	w	T	A	A	T	T	C	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
ENSMUSG00000061975	Target	Mus musculus	chr7:104,018,143-104,018,150	+	TGAATAAT	–	ATTATTCA
ENSMUSG00000061975_CFAM	Orthologue	Canis familiaris	chr21:34,583,991-34,583,998	+	TGAATTAT	–	ATAATTCA
ENSMUSG00000061975_DNOV	Orthologue	Dasypus novemcinctus	scaffold_113544:4,387-4,394	+	TGAATTAA	–	TTAATTCA
ENSMUSG00000061975_DRER	Orthologue	Danio rerio	chr15:36,042,630-36,042,637	+	TGAATTAT	–	ATAATTCA
ENSMUSG00000061975_FRUB	Orthologue	Fugu rubripes	chrUn:265,470,122-265,470,129	+	TGAATAAT	–	ATTATTCA
ENSMUSG00000061975_HSAP	Orthologue	Homo sapiens	chr11:7,777,127-7,777,134	–	TGAATTAA	+	TTAATTCA
ENSMUSG00000061975_LAFR	Orthologue	Loxodonta africana	scaffold_52470:6,001-6,008	–	TGAATAAT	+	ATTATTCA
ENSMUSG00000061975_MDOM	Orthologue	Monodelphis domestica	scaffold_33:18,997,494-18,997,501	–	TGAATTAT	+	ATAATTCA
ENSMUSG00000061975_MMUL	Orthologue	Macaca mulatta	SCAFFOLD105816:43,996-44,003	+	TGAATTAA	–	TTAATTCA
ENSMUSG00000061975_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_207842:12,623-12,630	+	TGAATTAA	–	TTAATTCA
ENSMUSG00000061975_PTRO	Orthologue	Pan troglodytes	chr9:7,897,225-7,897,232	–	TGAATTAA	+	TTAATTCA
ENSMUSG00000061975_SARA	Orthologue	Sorex araneus	ENSMUSG00000061975_SARA:169-176	+	TGAATATA	–	TATATTCA
ENSMUSG00000061975_XTRO	Orthologue	Xenopus tropicalis	scaffold_10:4,195,708-4,195,715	+	TGAATTAT	–	ATAATTCA

Export Site Sequences Stack