cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000049057 > craMmus45162

Motif craMmus45162

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	craMmus45162
Discovery p-value	2.79E-03
Motif location	chr2: 89,723,331-89,723,340 (+) (10 bp)
Search region location	chr2: 89,722,938-89,724,743 (+) (1,806 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	16 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Spermophilus tridecemlineatus, Xenopus tropicalis
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 3 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (3 annot.): FOXP1a(3.02E-04) , POU2F1(5.54E-04) , FOXP3(5.88E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 9 (C-EBPbeta__FOXP1a) 90 (Evi-1__FOXP1a) 243 (FOXP1a__Nkx6-2) 245 (FOXJ2__FOXP1a) 282 (FOXP1a__POU3F2) 355 (FOXP1a__aMEF-2) 392 (FOXP1a__S8) 471 (FOXP1a__FOXP1a) 593 (FOXP1a__STAT5A) 676 (FOXP1a__RSRFC4) 937 (FOXP1a__YY1) 1259 (FOXP1a__MEF-2A) 1298 (FOXP1a__POU2F1) 1387 (FOXD3__FOXP1a) 1412 (FOXP1a__HOXA5) 1569 (FOXP1a__IPF1) 1596 (FOXP1a__HNF-6) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

ATAAnAwAAA

TTTsTnTTAT

Position frequency matrix

	1	2	3	4	5	6	7	8	9	10
A	16	0	14	13	5	16	8	13	10	16
C	0	0	0	0	5	0	0	0	4	0
G	0	0	2	2	0	0	0	0	0	0
T	0	16	0	1	6	0	8	3	2	0
	A	T	A	A	n	A	w	A	A	A

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9	10
A	0	2	3	8	0	6	1	0	16	0
C	0	0	0	0	0	0	2	2	0	0
G	0	4	0	0	0	5	0	0	0	0
T	16	10	13	8	16	5	13	14	0	16
	T	T	T	w	T	n	T	T	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
ENSMUSG00000049057	Target	Mus musculus	chr2:89,723,331-89,723,340	+	ATAATAAAAA	–	TTTTTATTAT
ENSMUSG00000049057_CFAM	Orthologue	Canis familiaris	chr18:44,409,879-44,409,888	+	ATATAATTAA	–	TTAATTATAT
ENSMUSG00000049057_DNOV	Orthologue	Dasypus novemcinctus	scaffold_70920:4,962-4,971	+	ATAGAATTAA	–	TTAATTCTAT
ENSMUSG00000049057_DRER	Orthologue	Danio rerio	chr15:36,001,749-36,001,758	–	ATGATAAACA	+	TGTTTATCAT
ENSMUSG00000049057_EEUR	Orthologue	Erinaceus europaeus	ENSMUSG00000049057_EEUR:271-280	–	ATAACAAAAA	+	TTTTTGTTAT
ENSMUSG00000049057_FRUB	Orthologue	Fugu rubripes	chrUn:265,469,578-265,469,587	–	ATAAAAATCA	+	TGATTTTTAT
ENSMUSG00000049057_HSAP	Orthologue	Homo sapiens	chr11:48,444,872-48,444,881	–	ATAATATAAA	+	TTTATATTAT
ENSMUSG00000049057_LAFR	Orthologue	Loxodonta africana	scaffold_35374:4,608-4,617	+	ATAACAAATA	–	TATTTGTTAT
ENSMUSG00000049057_MDOM	Orthologue	Monodelphis domestica	scaffold_33:22,361,881-22,361,890	+	ATAGTAAACA	–	TGTTTACTAT
ENSMUSG00000049057_MMUL	Orthologue	Macaca mulatta	SCAFFOLD85976:52,566-52,575	+	ATAATATAAA	–	TTTATATTAT
ENSMUSG00000049057_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_124292:3,731-3,740	–	ATGACAAAAA	+	TTTTTGTCAT
ENSMUSG00000049057_PTRO	Orthologue	Pan troglodytes	9_random:22,493,359-22,493,368	+	ATAATATACA	–	TGTATATTAT
ENSMUSG00000049057_RNOR	Orthologue	Rattus norvegicus	chr3:74,195,795-74,195,804	–	ATAAAATAAA	+	TTTATTTTAT
ENSMUSG00000049057_SSCR	Orthologue	Sus scrofa	ENSMUSG00000049057_SSCR:249-258	–	ATAACAAATA	+	TATTTGTTAT
ENSMUSG00000049057_STRI	Orthologue	Spermophilus tridecemlineatus	ENSMUSG00000049057_STRI:362-371	–	ATAAAATAAA	+	TTTATTTTAT
ENSMUSG00000049057_XTRO	Orthologue	Xenopus tropicalis	scaffold_10:3,699,632-3,699,641	–	ATAACATAAA	+	TTTATGTTAT

Export Site Sequences Stack