cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000038193 > craMmus167891

Motif craMmus167891

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	craMmus167891
Discovery p-value	2.79E-03
Motif location	chr8: 55,702,948-55,702,959 (+) (12 bp)
Search region location	chr8: 55,702,295-55,704,017 (+) (1,723 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	25 species: Mus musculus, Bos taurus, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Felis catus, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Tupaia belangeri, 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.): HOXA3(3.38E-04) , FOXP1a(3.54E-04) , Cdx-2(3.55E-04) , HNF-3(4.96E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 9 (C-EBPbeta__FOXP1a) 60 (Cdx-2__HNF-1alpha) 72 (FOXP1a__HNF-1alpha) 103 (C-EBPbeta__Cdx-2) 197 (FOXP1a__IRF-7A) 218 (HNF-1alpha__HOXA3) 437 (CUTL1__Cdx-2) 1023 (Cdx-2__IRF-7A) 1044 (Cdx-2__POU1F1) 1054 (CUTL1__HOXA3) 1215 (HOXA3__POU1F1) 1340 (FOXP1a__POU1F1) 1376 (CUTL1__FOXP1a) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

ATwTATrTskTy

rAmwAyATAsAT

Position frequency matrix

	1	2	3	4	5	6	7	8	9	10	11	12
A	25	0	13	0	25	0	12	0	0	0	0	0
C	0	0	3	0	0	3	0	0	15	0	0	13
G	0	3	0	0	0	0	13	0	10	13	0	0
T	0	22	9	25	0	22	0	25	0	12	25	12
	A	T	w	T	A	T	r	T	s	k	T	y

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9	10	11	12
A	12	25	12	0	25	0	22	0	25	9	22	0
C	0	0	13	10	0	13	0	0	0	0	3	0
G	13	0	0	15	0	0	3	0	0	3	0	0
T	0	0	0	0	0	12	0	25	0	13	0	25
	r	A	m	s	A	y	A	T	A	w	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
ENSMUSG00000038193	Target	Mus musculus	chr8:55,702,948-55,702,959	+	ATTTATATGTTT	–	AAACATATAAAT
ENSMUSG00000038193_BTAU	Orthologue	Bos taurus	chr8:3,385,602-3,385,613	–	ATTTATATGTTT	+	AAACATATAAAT
ENSMUSG00000038193_CHOF	Orthologue	Choloepus hoffmanni	ENSMUSG00000038193_CHOF:299-310	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_CJAC	Orthologue	Callithrix jacchus	ENSMUSG00000038193_CJAC:610-621	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_CPOR	Orthologue	Cavia porcellus	ENSMUSG00000038193_CPOR:1,076-1,087	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_DRER	Orthologue	Danio rerio	chr1:37,807,508-37,807,519	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_EEUR	Orthologue	Erinaceus europaeus	ENSMUSG00000038193_EEUR:1,100-1,111	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_ETEL	Orthologue	Echinops telfairi	scaffold_313264:87,755-87,766	–	ATTTATATGTTT	+	AAACATATAAAT
ENSMUSG00000038193_FCAT	Orthologue	Felis catus	ENSMUSG00000038193_FCAT:1,085-1,096	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_GGAL	Orthologue	Gallus gallus	chrUn:51,154,457-51,154,468	–	AGCTACATGTTT	+	AAACATGTAGCT
ENSMUSG00000038193_HSAP	Orthologue	Homo sapiens	chr4:174,827,019-174,827,030	–	ATTTATATGTTT	+	AAACATATAAAT
ENSMUSG00000038193_LAFR	Orthologue	Loxodonta africana	scaffold_1280:35,159-35,170	–	ATTTATATGTTT	+	AAACATATAAAT
ENSMUSG00000038193_MDOM	Orthologue	Monodelphis domestica	scaffold_9:51,519,363-51,519,374	–	ATTTATATGTTT	+	AAACATATAAAT
ENSMUSG00000038193_MLUC	Orthologue	Myotis lucifugus	ENSMUSG00000038193_MLUC:1,160-1,171	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_MMUL	Orthologue	Macaca mulatta	SCAFFOLD30378:58,940-58,951	+	ATTTATATGTTT	–	AAACATATAAAT
ENSMUSG00000038193_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_204744:74,474-74,485	–	AGCTACATCTTT	+	AAAGATGTAGCT
ENSMUSG00000038193_OGAR	Orthologue	Otolemur garnettii	ENSMUSG00000038193_OGAR:381-392	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_PCAP	Orthologue	Procavia capensis	ENSMUSG00000038193_PCAP:1,091-1,102	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_PPYG	Orthologue	Pongo pygmaeus	ENSMUSG00000038193_PPYG:1,059-1,070	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_PTRO	Orthologue	Pan troglodytes	chr3:192,808,926-192,808,937	–	ATTTATATGTTT	+	AAACATATAAAT
ENSMUSG00000038193_RNOR	Orthologue	Rattus norvegicus	chr16:36,328,122-36,328,133	–	ATTTATATGTTT	+	AAACATATAAAT
ENSMUSG00000038193_SARA	Orthologue	Sorex araneus	ENSMUSG00000038193_SARA:856-867	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_SSCR	Orthologue	Sus scrofa	ENSMUSG00000038193_SSCR:785-796	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_TBEL	Orthologue	Tupaia belangeri	ENSMUSG00000038193_TBEL:1,232-1,243	–	ATATATGTCGTC	+	GACGACATATAT
ENSMUSG00000038193_XTRO	Orthologue	Xenopus tropicalis	scaffold_25:1,316,351-1,316,362	–	AGCTACATCTTT	+	AAAGATGTAGCT

Export Site Sequences Stack