cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000045498 > craMmus338528

Motif craMmus338528

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	craMmus338528
Discovery p-value	2.79E-03
Motif location	chr18: 37,676,481-37,676,488 (+) (8 bp)
Search region location	chr18: 37,675,500-37,677,199 (+) (1,700 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	16 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Dasypus novemcinctus, Felis catus, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Rattus norvegicus, Tetraodon nigroviridis
Found with	MotifSampler
'De Novo' motif group ID	This motif was not submitted for clustering.
Similar to (annotation p-value)	There are 10 annotation(s) with p-values below 0.001. JASPAR: (0 annot.): none TRANSFAC: (9 annot.): CUTL1(8.58E-05) , S8(1.48E-04) , FOXD3(4.23E-04) , FOXJ2(4.83E-04) , FOXP3(5.10E-04) ... ORegAnno: (1 annot.): FoxA1(8.55E-04)
Modules (Co-occurring motif patterns)	Annotation-based: 31 (CUTL1__POU6F1_(c2)) 199 (IPF1__S8) 226 (POU3F2__S8) 343 (POU1F1__S8) 387 (CUTL1__IPF1) 391 (CUTL1__POU3F2) 393 (CUTL1__POU2F1) 880 (CUTL1__POU1F1) 921 (CUTL1__Pax-6) 959 (Pax-6__S8) 1048 (E4BP4__S8) 1177 (POU6F1_(c2)__S8) 1181 (POU2F1__S8) 1563 (CUTL1__E4BP4) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

TAATAATT

AATTATTA

Position frequency matrix

	1	2	3	4	5	6	7	8
A	0	15	16	0	14	16	0	0
C	3	1	0	0	0	0	0	0
G	0	0	0	0	0	0	0	0
T	13	0	0	16	2	0	16	16
	T	A	A	T	A	A	T	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8
A	16	16	0	2	16	0	0	13
C	0	0	0	0	0	0	0	0
G	0	0	0	0	0	0	1	3
T	0	0	16	14	0	16	15	0
	A	A	T	T	A	T	T	A

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
ENSMUSG00000045498	Target	Mus musculus	chr18:37,676,481-37,676,488	+	TAATAATT	–	AATTATTA
ENSMUSG00000045498_CFAM	Orthologue	Canis familiaris	chr2:39,013,695-39,013,702	–	TAATAATT	+	AATTATTA
ENSMUSG00000045498_CHOF	Orthologue	Choloepus hoffmanni	ENSMUSG00000045498_CHOF:371-378	+	TAATAATT	–	AATTATTA
ENSMUSG00000045498_CJAC	Orthologue	Callithrix jacchus	ENSMUSG00000045498_CJAC:1,262-1,269	–	TAATAATT	+	AATTATTA
ENSMUSG00000045498_DNOV	Orthologue	Dasypus novemcinctus	scaffold_35329:220-227	+	CAATAATT	–	AATTATTG
ENSMUSG00000045498_FCAT	Orthologue	Felis catus	ENSMUSG00000045498_FCAT:529-536	+	TAATTATT	–	AATAATTA
ENSMUSG00000045498_FRUB	Orthologue	Fugu rubripes	chrUn:109,422,039-109,422,046	+	TCATAATT	–	AATTATGA
ENSMUSG00000045498_HSAP	Orthologue	Homo sapiens	chr5:140,459,925-140,459,932	–	TAATAATT	+	AATTATTA
ENSMUSG00000045498_LAFR	Orthologue	Loxodonta africana	scaffold_49525:1,957-1,964	–	TAATAATT	+	AATTATTA
ENSMUSG00000045498_MDOM	Orthologue	Monodelphis domestica	scaffold_6:67,420,964-67,420,971	–	TAATAATT	+	AATTATTA
ENSMUSG00000045498_MMUL	Orthologue	Macaca mulatta	SCAFFOLD40016:227,053-227,060	+	TAATTATT	–	AATAATTA
ENSMUSG00000045498_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_203418:15,115-15,122	–	CAATAATT	+	AATTATTG
ENSMUSG00000045498_PCAP	Orthologue	Procavia capensis	ENSMUSG00000045498_PCAP:123-130	+	TAATAATT	–	AATTATTA
ENSMUSG00000045498_PTRO	Orthologue	Pan troglodytes	chr4:147,084,562-147,084,569	–	TAATAATT	+	AATTATTA
ENSMUSG00000045498_RNOR	Orthologue	Rattus norvegicus	chr18:30,136,486-30,136,493	+	TAATAATT	–	AATTATTA
ENSMUSG00000045498_TNIG	Orthologue	Tetraodon nigroviridis	chr1:101,678-101,685	–	CAATAATT	+	AATTATTG

Export Site Sequences Stack