cisRED: cis-regulatory element database

cisRED > Mouse 3.1 > gene. ENSMUSG00000057801 > craMmus292480

Motif craMmus292480

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	craMmus292480
Discovery p-value	2.79E-03
Motif location	chr17: 36,379,128-36,379,137 (+) (10 bp)
Search region location	chr17: 36,378,119-36,380,280 (+) (2,162 bp)
Assembly	Mouse, Ensembl v38 (NCBI m35)
Found in	16 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, 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.): Evi-1(1.88E-04) , SRY(6.41E-04) , POU3F2(6.94E-04) , YY1(7.14E-04) ORegAnno: (0 annot.): none
Modules (Co-occurring motif patterns)	Annotation-based: 44 (CUTL1__Evi-1) 118 (Chx10__Evi-1) 124 (Cdx-2__Evi-1) 140 (Evi-1__YY1) 270 (Evi-1__HNF-3) 421 (Crx__Evi-1) 446 (Evi-1__RSRFC4) 662 (Evi-1__SRF) 1333 (Evi-1__POU1F1) 1439 (Evi-1__HOXA5) No 'de novo' modules exist in this database.

Sequence Conservation

Sequence logo

(+)motif

(-)motif

Consensus sequence

TTATCwTAwT

AsTAsGATAA

Position frequency matrix

	1	2	3	4	5	6	7	8	9	10
A	2	0	16	0	0	8	5	13	7	4
C	0	0	0	0	12	2	0	3	0	0
G	0	0	0	0	4	0	0	0	0	2
T	14	16	0	16	0	6	11	0	9	10
	T	T	A	T	C	w	T	A	w	T

Transfac

Jaspar

CSV

	1	2	3	4	5	6	7	8	9	10
A	10	9	0	11	6	0	16	0	16	14
C	2	0	0	0	0	4	0	0	0	0
G	0	0	3	0	2	12	0	0	0	0
T	4	7	13	5	8	0	0	16	0	2
	A	w	T	A	w	G	A	T	A	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
ENSMUSG00000057801	Target	Mus musculus	chr17:36,379,128-36,379,137	+	TTATCATAAA	–	TTTATGATAA
ENSMUSG00000057801_BTAU	Orthologue	Bos taurus	chr3:62,413,082-62,413,091	–	ATATCAAAAT	+	ATTTTGATAT
ENSMUSG00000057801_CFAM	Orthologue	Canis familiaris	chr6:40,887,315-40,887,324	–	TTATCTAATA	+	TATTAGATAA
ENSMUSG00000057801_CHOF	Orthologue	Choloepus hoffmanni	ENSMUSG00000057801_CHOF:131-140	–	TTATCAACAT	+	ATGTTGATAA
ENSMUSG00000057801_DNOV	Orthologue	Dasypus novemcinctus	scaffold_71203:508-517	–	TTATCCTATA	+	TATAGGATAA
ENSMUSG00000057801_DRER	Orthologue	Danio rerio	chr15:36,003,612-36,003,621	–	TTATCTTAAT	+	ATTAAGATAA
ENSMUSG00000057801_ETEL	Orthologue	Echinops telfairi	scaffold_35478:1,971-1,980	–	TTATGAACAA	+	TTGTTCATAA
ENSMUSG00000057801_GGAL	Orthologue	Gallus gallus	chr5:2,409,012-2,409,021	–	ATATCATAAT	+	ATTATGATAT
ENSMUSG00000057801_HSAP	Orthologue	Homo sapiens	chr6:29,215,442-29,215,451	+	TTATCATCTT	–	AAGATGATAA
ENSMUSG00000057801_LAFR	Orthologue	Loxodonta africana	scaffold_50537:38,163-38,172	+	TTATCCTATT	–	AATAGGATAA
ENSMUSG00000057801_MDOM	Orthologue	Monodelphis domestica	scaffold_33:16,792,323-16,792,332	–	TTATGTTATT	+	AATAACATAA
ENSMUSG00000057801_MMUL	Orthologue	Macaca mulatta	SCAFFOLD35633:13,225-13,234	+	TTATGTTATT	–	AATAACATAA
ENSMUSG00000057801_OCUN	Orthologue	Oryctolagus cuniculus	scaffold_185279:3,798-3,807	–	TTATCAAATT	+	AATTTGATAA
ENSMUSG00000057801_PTRO	Orthologue	Pan troglodytes	chr5:29,737,267-29,737,276	–	TTATGTTATT	+	AATAACATAA
ENSMUSG00000057801_RNOR	Orthologue	Rattus norvegicus	chr20:188,933-188,942	+	TTATCATAAG	–	CTTATGATAA
ENSMUSG00000057801_XTRO	Orthologue	Xenopus tropicalis	scaffold_786:552,460-552,469	–	TTATCTTATG	+	CATAAGATAA

Export Site Sequences Stack