cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000029833 > craMmus138951

Motif craMmus138951

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	craMmus138951
Discovery p-value	4.66E-03
Motif location	chr6: 37,800,735-37,800,741 (+) (7 bp)
Search region location	chr6: 37,799,968-37,801,936 (+) (1,969 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	6 species: Mus musculus, Callithrix jacchus, Homo sapiens, Monodelphis domestica, Macaca mulatta, Pan troglodytes
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 7 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (6 annot.): IPF1(1.49E-04) , C-EBPgamma(3.28E-04) , Cdx-2(8.28E-04) , Lhx3a(8.78E-04) , Pbx1a(9.04E-04) ... ORegAnno: (1 annot.): FoxA1(6.44E-04)
Modules (Co-occurring motif patterns)	Annotation-based: 856 (Cdx-2__IPF1) 1468 (C-EBPgamma__Cdx-2) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

TATTAAT

ATTAATA

Position frequency matrix

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

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7
A	6	0	0	6	6	0	6
C	0	0	0	0	0	0	0
G	0	0	0	0	0	0	0
T	0	6	6	0	0	6	0
	A	T	T	A	A	T	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
ENSMUSG00000029833	Target	Mus musculus	chr6:37,800,735-37,800,741	+	TATTAAT	–	ATTAATA
ENSMUSG00000029833_CJAC	Orthologue	Callithrix jacchus	ENSMUSG00000029833_CJAC:96-102	+	TATTAAT	–	ATTAATA
ENSMUSG00000029833_HSAP	Orthologue	Homo sapiens	chr7:137,601,520-137,601,526	+	TATTAAT	–	ATTAATA
ENSMUSG00000029833_MDOM	Orthologue	Monodelphis domestica	scaffold_22:4,063,906-4,063,912	–	TATTAAT	+	ATTAATA
ENSMUSG00000029833_MMUL	Orthologue	Macaca mulatta	SCAFFOLD26171:6,798-6,804	+	TATTAAT	–	ATTAATA
ENSMUSG00000029833_PTRO	Orthologue	Pan troglodytes	chr6:140,354,062-140,354,068	+	TATTAAT	–	ATTAATA

Export Site Sequences Stack