cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000043274 > craMmus333172

Motif craMmus333172

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	craMmus333172
Discovery p-value	2.79E-03
Motif location	chr2: 87,260,917-87,260,928 (+) (12 bp)
Search region location	chr2: 87,260,197-87,261,965 (+) (1,769 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	17 species: Mus musculus, Bos taurus, Canis familiaris, Danio rerio, Erinaceus europaeus, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pan troglodytes, Rattus norvegicus, Tupaia belangeri
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 1 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (1 annot.): CUTL1(2.94E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 111 (CUTL1__HNF-1alpha) 271 (CUTL1__RSRFC4) 320 (CUTL1__TEF) 329 (CUTL1__Chx10) 360 (AR__CUTL1) 387 (CUTL1__IPF1) 393 (CUTL1__POU2F1) 545 (CUTL1__HNF-3) 579 (CUTL1__FXR) 658 (CUTL1__Lhx3a) 733 (CUTL1__OCA-B) 787 (CUTL1__aMEF-2) 821 (CUTL1__HNF-3alpha) 880 (CUTL1__POU1F1) 921 (CUTL1__Pax-6) 1358 (CUTL1__Nkx6-2) 1376 (CUTL1__FOXP1a) 1407 (CUTL1__MEF-2A) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

ATwTGwTCwwTT

AAssGAsCAsAT

Position frequency matrix

	1	2	3	4	5	6	7	8	9	10	11	12
A	17	2	8	1	5	5	0	3	11	9	0	4
C	0	0	0	0	0	0	1	10	0	0	0	0
G	0	0	0	0	12	3	0	0	0	0	0	0
T	0	15	9	16	0	9	16	4	6	8	17	13
	A	T	w	T	G	w	T	m	n	w	T	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9	10	11	12
A	13	17	8	6	4	16	9	0	16	9	15	0
C	0	0	0	0	0	0	3	12	0	0	0	0
G	0	0	0	0	10	1	0	0	0	0	0	0
T	4	0	9	11	3	0	5	5	1	8	2	17
	A	A	w	n	r	A	w	C	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
ENSMUSG00000043274	Target	Mus musculus	chr2:87,260,917-87,260,928	+	ATTTGATCAATT	–	AATTGATCAAAT
ENSMUSG00000043274_BTAU	Orthologue	Bos taurus	chr2:605,367-605,378	–	ATTTATTTTATT	+	AATAAAATAAAT
ENSMUSG00000043274_CFAM	Orthologue	Canis familiaris	chr18:42,957,772-42,957,783	–	ATATGTTTTATA	+	TATAAAACATAT
ENSMUSG00000043274_DRER	Orthologue	Danio rerio	chr10:33,701,281-33,701,292	–	AAATGTTTTATT	+	AATAAAACATTT
ENSMUSG00000043274_EEUR	Orthologue	Erinaceus europaeus	ENSMUSG00000043274_EEUR:102-113	+	ATTTGTTCTTTT	–	AAAAGAACAAAT
ENSMUSG00000043274_FRUB	Orthologue	Fugu rubripes	chrUn:304,390,649-304,390,660	+	ATTAATTCATTT	–	AAATGAATTAAT
ENSMUSG00000043274_HSAP	Orthologue	Homo sapiens	chr11:55,492,499-55,492,510	–	ATTTGTTCTTTT	+	AAAAGAACAAAT
ENSMUSG00000043274_LAFR	Orthologue	Loxodonta africana	scaffold_28824:1,316-1,327	–	ATATATCCAATT	+	AATTGGATATAT
ENSMUSG00000043274_MDOM	Orthologue	Monodelphis domestica	scaffold_33:17,446,134-17,446,145	+	ATATATTCATTA	–	TAATGAATATAT
ENSMUSG00000043274_MLUC	Orthologue	Myotis lucifugus	ENSMUSG00000043274_MLUC:72-83	–	ATATGGTAAATT	+	AATTTACCATAT
ENSMUSG00000043274_MMUL	Orthologue	Macaca mulatta	SCAFFOLD126104:4,426-4,437	–	ATTTAATCATTA	+	TAATGATTAAAT
ENSMUSG00000043274_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_98029:408-419	–	ATTTGATCATTA	+	TAATGATCAAAT
ENSMUSG00000043274_OGAR	Orthologue	Otolemur garnettii	ENSMUSG00000043274_OGAR:10-21	–	ATATGGTAAATT	+	AATTTACCATAT
ENSMUSG00000043274_PCAP	Orthologue	Procavia capensis	ENSMUSG00000043274_PCAP:72-83	–	ATATGATAAATT	+	AATTTATCATAT
ENSMUSG00000043274_PTRO	Orthologue	Pan troglodytes	9_random:27,135,645-27,135,656	–	ATTTGTTCTTTT	+	AAAAGAACAAAT
ENSMUSG00000043274_RNOR	Orthologue	Rattus norvegicus	chr3:70,951,552-70,951,563	+	ATTTGATCAATT	–	AATTGATCAAAT
ENSMUSG00000043274_TBEL	Orthologue	Tupaia belangeri	ENSMUSG00000043274_TBEL:193-204	+	AAATGGTTATTT	–	AAATAACCATTT

Export Site Sequences Stack