FILTERS:
pvalue:0.1
Motif craMmus38897
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 craMmus38897
Discovery p-value 2.79E-03
Motif location chr19: 13,449,179-13,449,186 (+) (8 bp)
Search region location chr19: 13,448,271-13,450,000 (+) (1,730 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 18 species: Mus musculus, Callithrix jacchus, Dasypus novemcinctus, Equus caballus, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macropus eugenii, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Tupaia belangeri, Tetraodon nigroviridis, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 2 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): IRF-1(1.31E-04) ,    POU3F2(8.06E-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 AyTGArTT AAyTCArT
Position frequency matrix
1 2 3 4 5 6 7 8
A 18 3 0 0 18 10 2 0
C 0 9 0 0 0 0 0 0
G 0 0 0 18 0 8 0 0
T 0 6 18 0 0 0 16 18
A y T G A r T T
1 2 3 4 5 6 7 8
A 18 16 0 0 0 18 6 0
C 0 0 8 0 18 0 0 0
G 0 0 0 0 0 0 9 0
T 0 2 10 18 0 0 3 18
A A y T C A r 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
ENSMUSG00000050865 Target Mus musculus chr19:13,449,179-13,449,186 + ATTGAAAT – ATTTCAAT
ENSMUSG00000050865_CJAC Orthologue Callithrix jacchus ENSMUSG00000050865_CJAC:71-78 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_DNOV Orthologue Dasypus novemcinctus scaffold_220756:74-81 – AATGAATT + AATTCATT
ENSMUSG00000050865_ECAB Orthologue Equus caballus ENSMUSG00000050865_ECAB:1,323-1,330 – AATGAATT + AATTCATT
ENSMUSG00000050865_ETEL Orthologue Echinops telfairi scaffold_219653:4,154-4,161 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_HSAP Orthologue Homo sapiens chr11:57,754,243-57,754,250 + ATTGAATT – AATTCAAT
ENSMUSG00000050865_LAFR Orthologue Loxodonta africana scaffold_4134:56,290-56,297 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_MDOM Orthologue Monodelphis domestica scaffold_33:21,349,405-21,349,412 – ATTGAATT + AATTCAAT
ENSMUSG00000050865_MEUG Orthologue Macropus eugenii ENSMUSG00000050865_MEUG:245-252 – ACTGAATT + AATTCAGT
ENSMUSG00000050865_MLUC Orthologue Myotis lucifugus ENSMUSG00000050865_MLUC:67-74 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_MMUL Orthologue Macaca mulatta SCAFFOLD5007:56,872-56,879 – ATTGAATT + AATTCAAT
ENSMUSG00000050865_OCUN Orthologue Oryctolagus cuniculus scaffold_121913:7,428-7,435 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_PPYG Orthologue Pongo pygmaeus ENSMUSG00000050865_PPYG:68-75 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_PTRO Orthologue Pan troglodytes chr9:58,670,229-58,670,236 + ATTGAATT – AATTCAAT
ENSMUSG00000050865_RNOR Orthologue Rattus norvegicus chr1:216,985,601-216,985,608 + ATTGAAAT – ATTTCAAT
ENSMUSG00000050865_TBEL Orthologue Tupaia belangeri ENSMUSG00000050865_TBEL:184-191 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_TNIG Orthologue Tetraodon nigroviridis Un_random:119,187,151-119,187,158 + ACTGAGTT – AACTCAGT
ENSMUSG00000050865_XTRO Orthologue Xenopus tropicalis scaffold_786:439,576-439,583 + AATGAATT – AATTCATT

Questions or comments: cisred@bcgsc.ca