cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000059319 > craMmus405324

Motif craMmus405324

More information about this gene at Ensembl.org

The contents of this page can be modified by changing your filter settings.
Currently, this page only shows information about a motif if it:
+ has a discovery p-value < 0.1
Filters based on species and motif discovery algorithms are not applied to the contents of this page.

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	craMmus405324
Discovery p-value	2.79E-03
Motif location	chr7: 82,520,206-82,520,213 (+) (8 bp)
Search region location	chr7: 82,518,620-82,520,634 (+) (2,015 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	11 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Homo sapiens, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Xenopus tropicalis
Found with	MotifSampler
'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.): FOXP1a(3.32E-06) , HP1_site_factor(3.99E-04) , POU1F1(4.68E-04) , Pbx1a(9.04E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 42 (HP1_site_factor__Nkx6-2) 90 (Evi-1__FOXP1a) 243 (FOXP1a__Nkx6-2) 282 (FOXP1a__POU3F2) 333 (HOXA5__HP1_site_factor) 355 (FOXP1a__aMEF-2) 443 (HP1_site_factor__POU2F1) 796 (HP1_site_factor__POU3F2) 945 (HP1_site_factor__IPF1) 1022 (FOXP1a__Lhx3a) 1033 (HP1_site_factor__Lhx3a) 1200 (Cdc5__FOXP1a) 1298 (FOXP1a__POU2F1) 1412 (FOXP1a__HOXA5) 1461 (HP1_site_factor__aMEF-2) 1569 (FOXP1a__IPF1) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

AATAATAA

TTATTATT

Position frequency matrix

	1	2	3	4	5	6	7	8
A	9	9	0	9	11	0	11	11
C	1	2	0	0	0	0	0	0
G	0	0	0	2	0	0	0	0
T	1	0	11	0	0	11	0	0
	A	A	T	A	A	T	A	A

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	0	0	11	0	0	11	0	1
C	0	0	0	0	2	0	0	0
G	0	0	0	0	0	0	2	1
T	11	11	0	11	9	0	9	9
	T	T	A	T	T	A	T	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
ENSMUSG00000059319	Target	Mus musculus	chr7:82,520,206-82,520,213	+	ACTAATAA	–	TTATTAGT
ENSMUSG00000059319_CFAM	Orthologue	Canis familiaris	chr14:5,334,135-5,334,142	+	AATAATAA	–	TTATTATT
ENSMUSG00000059319_DNOV	Orthologue	Dasypus novemcinctus	scaffold_39105:4,090-4,097	–	CATGATAA	+	TTATCATG
ENSMUSG00000059319_DRER	Orthologue	Danio rerio	chr21:38,719,000-38,719,007	–	AATAATAA	+	TTATTATT
ENSMUSG00000059319_ETEL	Orthologue	Echinops telfairi	scaffold_267478:2,980-2,987	+	ACTAATAA	–	TTATTAGT
ENSMUSG00000059319_HSAP	Orthologue	Homo sapiens	chr1:244,835,960-244,835,967	+	AATAATAA	–	TTATTATT
ENSMUSG00000059319_MMUL	Orthologue	Macaca mulatta	SCAFFOLD478:4,866-4,873	–	TATAATAA	+	TTATTATA
ENSMUSG00000059319_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_177516:101,865-101,872	–	AATGATAA	+	TTATCATT
ENSMUSG00000059319_PTRO	Orthologue	Pan troglodytes	chr1:228,895,606-228,895,613	+	AATAATAA	–	TTATTATT
ENSMUSG00000059319_RNOR	Orthologue	Rattus norvegicus	chr1:142,913,742-142,913,749	–	AATAATAA	+	TTATTATT
ENSMUSG00000059319_XTRO	Orthologue	Xenopus tropicalis	scaffold_7:4,565,711-4,565,718	–	AATAATAA	+	TTATTATT

Export Site Sequences Stack