FILTERS:
pvalue:0.1
Motif craMmus338348
More information about this gene at Ensembl.org Go to UCSC
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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 craMmus338348
Discovery p-value 2.79E-03
Motif location chr6: 36,454,047-36,454,055 (+) (9 bp)
Search region location chr6: 36,453,264-36,454,995 (+) (1,732 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Bos taurus, Canis familiaris, Callithrix jacchus, Cavia porcellus, Equus caballus, Echinops telfairi, Gallus gallus, Homo sapiens, Monodelphis domestica, Myotis lucifugus, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Sus scrofa, Spermophilus tridecemlineatus, Tupaia belangeri, Xenopus tropicalis
Found with
'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.): HNF-1alpha(3.42E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AAATGAATA TATTCATTT
Position frequency matrix
1 2 3 4 5 6 7 8 9
A 14 19 18 6 0 20 20 0 20
C 1 1 0 0 0 0 0 0 0
G 2 0 0 0 20 0 0 0 0
T 3 0 2 14 0 0 0 20 0
A A A T G A A T A
1 2 3 4 5 6 7 8 9
A 0 20 0 0 0 14 2 0 3
C 0 0 0 0 20 0 0 0 2
G 0 0 0 0 0 0 0 1 1
T 20 0 20 20 0 6 18 19 14
T A T T C A T T T

In the table below, bases highlighted on the Target sequence will link to a single nucleotide polymoprhism in NCBI's dbSNP.

Site Sequence Stack
Ensembl gene ID Type Species Position Std (+)Sequence Std (-)Sequence
ENSMUSG00000045613 Target Mus musculus chr6:36,454,047-36,454,055 + CAAAGAATA – TATTCTTTG
ENSMUSG00000045613_BTAU Orthologue Bos taurus chr4:55,283,989-55,283,997 + TAAAGAATA – TATTCTTTA
ENSMUSG00000045613_CFAM Orthologue Canis familiaris chr16:14,472,009-14,472,017 + TATAGAATA – TATTCTATA
ENSMUSG00000045613_CJAC Orthologue Callithrix jacchus ENSMUSG00000045613_CJAC:121-129 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_CPOR Orthologue Cavia porcellus ENSMUSG00000045613_CPOR:490-498 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_ECAB Orthologue Equus caballus ENSMUSG00000045613_ECAB:122-130 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_ETEL Orthologue Echinops telfairi scaffold_53251:11,289-11,297 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_GGAL Orthologue Gallus gallus chr1:54,491,832-54,491,840 – AAATGAATA + TATTCATTT
ENSMUSG00000045613_HSAP Orthologue Homo sapiens chr7:136,155,953-136,155,961 + GAAAGAATA – TATTCTTTC
ENSMUSG00000045613_MDOM Orthologue Monodelphis domestica scaffold_22:5,974,239-5,974,247 – AAATGAATA + TATTCATTT
ENSMUSG00000045613_MLUC Orthologue Myotis lucifugus ENSMUSG00000045613_MLUC:416-424 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_OCUN Orthologue Oryctolagus cuniculus scaffold_195793:200,104-200,112 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_OGAR Orthologue Otolemur garnettii ENSMUSG00000045613_OGAR:466-474 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_PCAP Orthologue Procavia capensis ENSMUSG00000045613_PCAP:165-173 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_PPYG Orthologue Pongo pygmaeus ENSMUSG00000045613_PPYG:157-165 – AATAGAATA + TATTCTATT
ENSMUSG00000045613_PTRO Orthologue Pan troglodytes chr6:138,875,571-138,875,579 + GAAAGAATA – TATTCTTTC
ENSMUSG00000045613_SSCR Orthologue Sus scrofa ENSMUSG00000045613_SSCR:129-137 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000045613_STRI:166-174 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_TBEL Orthologue Tupaia belangeri ENSMUSG00000045613_TBEL:796-804 + AAATGAATA – TATTCATTT
ENSMUSG00000045613_XTRO Orthologue Xenopus tropicalis scaffold_447:549,066-549,074 + TCATGAATA – TATTCATGA

Questions or comments: cisred@bcgsc.ca