cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000005881 > craMmus12639

Motif craMmus12639

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	craMmus12639
Discovery p-value	9.16E-02
Motif location	chr2: 155,746,776-155,746,783 (+) (8 bp)
Search region location	chr2: 155,746,162-155,749,163 (+) (3,002 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	6 species: Mus musculus, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus
Found with	Consensus.omops, 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.): STAT5A(5.16E-04) , HP1_site_factor(8.43E-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

TTTTTAAA

TTTAAAAA

Position frequency matrix

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

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	0	0	0	6	6	6	6	6
C	0	0	0	0	0	0	0	0
G	0	0	0	0	0	0	0	0
T	6	6	6	0	0	0	0	0
	T	T	T	A	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
ENSMUSG00000005881	Target	Mus musculus	chr2:155,746,776-155,746,783	+	TTTTTAAA	–	TTTAAAAA
ENSMUSG00000005881_MDOM	Orthologue	Monodelphis domestica	scaffold_6:11,434,197-11,434,204	+	TTTTTAAA	–	TTTAAAAA
ENSMUSG00000005881_MMUL	Orthologue	Macaca mulatta	SCAFFOLD100460:66,274-66,281	–	TTTTTAAA	+	TTTAAAAA
ENSMUSG00000005881_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_202058:38,093-38,100	–	TTTTTAAA	+	TTTAAAAA
ENSMUSG00000005881_PTRO	Orthologue	Pan troglodytes	chr21:35,610,634-35,610,641	+	TTTTTAAA	–	TTTAAAAA
ENSMUSG00000005881_RNOR	Orthologue	Rattus norvegicus	chr3:146,320,545-146,320,552	–	TTTTTAAA	+	TTTAAAAA

Export Site Sequences Stack