cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000022300 > craMmus88633

Motif craMmus88633

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	craMmus88633
Discovery p-value	1.37E-03
Motif location	chr15: 39,116,931-39,116,939 (+) (9 bp)
Search region location	chr15: 39,116,699-39,118,582 (+) (1,884 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	12 species: Mus musculus, Canis familiaris, Echinops telfairi, Felis catus, Gallus gallus, Homo sapiens, Monodelphis domestica, Macaca mulatta, Pan troglodytes, Rattus norvegicus, Sorex araneus, Xenopus tropicalis
Found with	Consensus.omops, Consensus.oops, Consensus.zmops
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 2 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (2 annot.): aMEF-2(5.93E-04) , E4BP4(8.39E-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

TTTTATnnn

nnnATAAAA

Position frequency matrix

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

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9
A	5	4	0	12	0	12	12	12	12
C	3	0	5	0	0	0	0	0	0
G	2	4	3	0	0	0	0	0	0
T	2	4	4	0	12	0	0	0	0
	n	n	n	A	T	A	A	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
ENSMUSG00000022300	Target	Mus musculus	chr15:39,116,931-39,116,939	+	TTTTATATA	–	TATATAAAA
ENSMUSG00000022300_CFAM	Orthologue	Canis familiaris	chr13:7,855,216-7,855,224	+	TTTTATGTG	–	CACATAAAA
ENSMUSG00000022300_ETEL	Orthologue	Echinops telfairi	scaffold_324940:52,660-52,668	+	TTTTATGCC	–	GGCATAAAA
ENSMUSG00000022300_FCAT	Orthologue	Felis catus	ENSMUSG00000022300_FCAT:115-123	+	TTTTATCAC	–	GTGATAAAA
ENSMUSG00000022300_GGAL	Orthologue	Gallus gallus	chr2:128,147,309-128,147,317	–	TTTTATGCT	+	AGCATAAAA
ENSMUSG00000022300_HSAP	Orthologue	Homo sapiens	chr8:104,495,056-104,495,064	–	TTTTATGAT	+	ATCATAAAA
ENSMUSG00000022300_MDOM	Orthologue	Monodelphis domestica	scaffold_3:59,087,403-59,087,411	–	TTTTATATT	+	AATATAAAA
ENSMUSG00000022300_MMUL	Orthologue	Macaca mulatta	SCAFFOLD115030:199,731-199,739	+	TTTTATACG	–	CGTATAAAA
ENSMUSG00000022300_PTRO	Orthologue	Pan troglodytes	chr7:106,889,051-106,889,059	–	TTTTATCTA	+	TAGATAAAA
ENSMUSG00000022300_RNOR	Orthologue	Rattus norvegicus	chr7:74,687,907-74,687,915	+	TTTTATACT	–	AGTATAAAA
ENSMUSG00000022300_SARA	Orthologue	Sorex araneus	ENSMUSG00000022300_SARA:15-23	–	TTTTATGAT	+	ATCATAAAA
ENSMUSG00000022300_XTRO	Orthologue	Xenopus tropicalis	scaffold_3:5,266,307-5,266,315	–	TTTTATCAG	+	CTGATAAAA

Export Site Sequences Stack