cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000001924 > craMmus4582

Motif craMmus4582

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	craMmus4582
Discovery p-value	9.42E-02
Motif location	chrX: 19,090,301-19,090,306 (+) (6 bp)
Search region location	chrX: 19,088,481-19,091,770 (+) (3,290 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	4 species: Mus musculus, Homo sapiens, Loxodonta africana, Rattus norvegicus
Found with	Consensus.zmops
'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.): HMG_I(9.36E-06) , HNF-1alpha(4.16E-04) , IRF-7A(6.28E-04) , ELF-1(9.04E-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

ATTAAA

TTTAAT

Position frequency matrix

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

Transfac

Jaspar

CSV

	1	2	3	4	5	6
A	0	0	0	4	4	0
C	0	0	0	0	0	0
G	0	0	0	0	0	0
T	4	4	4	0	0	4
	T	T	T	A	A	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
ENSMUSG00000001924	Target	Mus musculus	chrX:19,090,301-19,090,306	+	ATTAAA	–	TTTAAT
ENSMUSG00000001924_HSAP	Orthologue	Homo sapiens	chrX:46,803,355-46,803,360	+	ATTAAA	–	TTTAAT
ENSMUSG00000001924_LAFR	Orthologue	Loxodonta africana	scaffold_77704:1,809-1,814	–	ATTAAA	+	TTTAAT
ENSMUSG00000001924_RNOR	Orthologue	Rattus norvegicus	chrX:12,955,363-12,955,368	–	ATTAAA	+	TTTAAT

Export Site Sequences Stack