cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000045708 > craMmus32540

Motif craMmus32540

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	craMmus32540
Discovery p-value	2.79E-03
Motif location	chr6: 42,853,625-42,853,632 (+) (8 bp)
Search region location	chr6: 42,853,007-42,854,706 (+) (1,700 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	26 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Felis catus, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macropus eugenii, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, 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 13 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (13 annot.): Pax-6(5.49E-06) , POU3F2(7.20E-05) , Chx10(9.09E-05) , COMP1(1.31E-04) , POU2F1(1.70E-04) ... ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 139 (OCA-B__POU2F1) 175 (HMG_I__POU3F2) 202 (Chx10__OCA-B) 216 (COMP1__aMEF-2) 295 (POU2F1__Pax-6) 358 (Chx10__POU2F1) 362 (OCA-B__POU3F2) 399 (POU3F2__aMEF-2) 434 (COMP1__POU2F1) 567 (HMG_I__POU2F1) 582 (Pax-6__aMEF-2) 656 (COMP1__OCA-B) 800 (POU2F1__TEF) 851 (POU2F1__aMEF-2) 994 (Chx10__TEF) 998 (POU2F1__POU3F2) 1088 (Pax-6__TEF) 1099 (HMG_I__Pax-6) 1167 (POU3F2__TEF) 1180 (POU2F1__POU2F1) 1310 (COMP1__HMG_I) 1311 (Chx10__HMG_I) 1471 (Chx10__aMEF-2) 1524 (OCA-B__Pax-6) 1533 (COMP1__TEF) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

AAGTACAT

ATGTACTT

Position frequency matrix

	1	2	3	4	5	6	7	8
A	26	18	4	0	26	0	24	0
C	0	0	0	0	0	25	0	0
G	0	0	21	0	0	0	0	0
T	0	8	1	26	0	1	2	26
	A	A	G	T	A	C	A	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	26	2	1	0	26	1	8	0
C	0	0	0	0	0	21	0	0
G	0	0	25	0	0	0	0	0
T	0	24	0	26	0	4	18	26
	A	T	G	T	A	C	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
ENSMUSG00000045708	Target	Mus musculus	chr6:42,853,625-42,853,632	+	ATTTACAT	–	ATGTAAAT
ENSMUSG00000045708_BTAU	Orthologue	Bos taurus	chr4:58,724,987-58,724,994	–	ATATACAT	+	ATGTATAT
ENSMUSG00000045708_CFAM	Orthologue	Canis familiaris	chr16:8,807,099-8,807,106	+	AAGTACAT	–	ATGTACTT
ENSMUSG00000045708_CHOF	Orthologue	Choloepus hoffmanni	ENSMUSG00000045708_CHOF:538-545	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_CJAC	Orthologue	Callithrix jacchus	ENSMUSG00000045708_CJAC:444-451	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_CPOR	Orthologue	Cavia porcellus	ENSMUSG00000045708_CPOR:223-230	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_DNOV	Orthologue	Dasypus novemcinctus	scaffold_38877:2,768-2,775	–	ATGTACAT	+	ATGTACAT
ENSMUSG00000045708_ECAB	Orthologue	Equus caballus	ENSMUSG00000045708_ECAB:547-554	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_ETEL	Orthologue	Echinops telfairi	scaffold_308532:53,523-53,530	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_FCAT	Orthologue	Felis catus	ENSMUSG00000045708_FCAT:385-392	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_FRUB	Orthologue	Fugu rubripes	chrUn:56,753,325-56,753,332	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_GGAL	Orthologue	Gallus gallus	chr5:2,413,081-2,413,088	+	ATATACAT	–	ATGTATAT
ENSMUSG00000045708_HSAP	Orthologue	Homo sapiens	chr7:143,209,132-143,209,139	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_LAFR	Orthologue	Loxodonta africana	scaffold_4044:79,169-79,176	+	ATGTACAT	–	ATGTACAT
ENSMUSG00000045708_MDOM	Orthologue	Monodelphis domestica	scaffold_7:2,497,498-2,497,505	–	ATGTATAT	+	ATATACAT
ENSMUSG00000045708_MEUG	Orthologue	Macropus eugenii	ENSMUSG00000045708_MEUG:294-301	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_MLUC	Orthologue	Myotis lucifugus	ENSMUSG00000045708_MLUC:433-440	–	AAGTACTT	+	AAGTACTT
ENSMUSG00000045708_MMUL	Orthologue	Macaca mulatta	SCAFFOLD30167:48,561-48,568	+	ATATACTT	–	AAGTATAT
ENSMUSG00000045708_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_173913:7,304-7,311	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_PCAP	Orthologue	Procavia capensis	ENSMUSG00000045708_PCAP:266-273	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_PPYG	Orthologue	Pongo pygmaeus	ENSMUSG00000045708_PPYG:486-493	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_PTRO	Orthologue	Pan troglodytes	chr6:145,960,110-145,960,117	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_RNOR	Orthologue	Rattus norvegicus	chr4:71,093,552-71,093,559	–	ATATACAT	+	ATGTATAT
ENSMUSG00000045708_SARA	Orthologue	Sorex araneus	ENSMUSG00000045708_SARA:484-491	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_TBEL	Orthologue	Tupaia belangeri	ENSMUSG00000045708_TBEL:448-455	–	AAGTACAT	+	ATGTACTT
ENSMUSG00000045708_XTRO	Orthologue	Xenopus tropicalis	scaffold_139:886,821-886,828	–	AAGTACAT	+	ATGTACTT

Export Site Sequences Stack