FILTERS:
pvalue:0.1
Motif craMmus346681
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 craMmus346681
Discovery p-value 2.79E-03
Motif location chr19: 12,600,679-12,600,688 (-) (10 bp)
Search region location chr19: 12,600,205-12,602,353 (-) (2,149 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Canis familiaris, Dasypus novemcinctus, Equus caballus, Erinaceus europaeus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macropus eugenii, Macaca mulatta, Ovis aries, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Rattus norvegicus, 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 2 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): HMG_I(3.69E-04) ,    STAT5A(7.02E-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 mnTAATyTms wkArATTAnk
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 11 5 0 20 20 0 0 0 11 7
C 6 3 0 0 0 6 7 0 9 0
G 1 10 0 0 0 0 0 0 0 0
T 2 2 20 0 0 14 13 20 0 13
m n T A A T n T m n
1 2 3 4 5 6 7 8 9 10
A 13 0 20 13 14 0 0 20 2 2
C 0 0 0 0 0 0 0 0 10 1
G 0 9 0 7 6 0 0 0 3 6
T 7 11 0 0 0 20 20 0 5 11
n k A n A T T A n k

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
ENSMUSG00000048456 Target Mus musculus chr19:12,600,679-12,600,688 + AGTAATTTCT – AGAAATTACT
ENSMUSG00000048456_CFAM Orthologue Canis familiaris chr18:40,953,096-40,953,105 – CATAATTTAT + ATAAATTATG
ENSMUSG00000048456_DNOV Orthologue Dasypus novemcinctus scaffold_170430:417-426 + AGTAATTTAA – TTAAATTACT
ENSMUSG00000048456_ECAB Orthologue Equus caballus ENSMUSG00000048456_ECAB:14-23 – CCTAATTTCA + TGAAATTAGG
ENSMUSG00000048456_EEUR Orthologue Erinaceus europaeus ENSMUSG00000048456_EEUR:238-247 + AGTAACCTCT – AGAGGTTACT
ENSMUSG00000048456_ETEL Orthologue Echinops telfairi scaffold_232072:19,257-19,266 – CATAATCTAT + ATAGATTATG
ENSMUSG00000048456_FRUB Orthologue Fugu rubripes chrUn:56,752,780-56,752,789 – CATAATTTAT + ATAAATTATG
ENSMUSG00000048456_GGAL Orthologue Gallus gallus chr5:2,425,395-2,425,404 + ATTAATTTCA – TGAAATTAAT
ENSMUSG00000048456_HSAP Orthologue Homo sapiens chr11:57,964,621-57,964,630 + AGTAATTTAT – ATAAATTACT
ENSMUSG00000048456_LAFR Orthologue Loxodonta africana scaffold_109733:4,533-4,542 – AGTAACCTCT + AGAGGTTACT
ENSMUSG00000048456_MDOM Orthologue Monodelphis domestica scaffold_33:18,373,979-18,373,988 – GCTAATTTAA + TTAAATTAGC
ENSMUSG00000048456_MEUG Orthologue Macropus eugenii ENSMUSG00000048456_MEUG:244-253 + AGTAACCTCT – AGAGGTTACT
ENSMUSG00000048456_MMUL Orthologue Macaca mulatta SCAFFOLD75060:90,593-90,602 + AGTAATTTAT – ATAAATTACT
ENSMUSG00000048456_OARI Orthologue Ovis aries ENSMUSG00000048456_OARI:309-318 + CATAATCTAT – ATAGATTATG
ENSMUSG00000048456_OCUN Orthologue Oryctolagus cuniculus scaffold_59244:36-45 – CCTAATTTCA + TGAAATTAGG
ENSMUSG00000048456_OGAR Orthologue Otolemur garnettii ENSMUSG00000048456_OGAR:99-108 + AATAATTTAA – TTAAATTATT
ENSMUSG00000048456_PCAP Orthologue Procavia capensis ENSMUSG00000048456_PCAP:222-231 – TGTAACTTCA + TGAAGTTACA
ENSMUSG00000048456_RNOR Orthologue Rattus norvegicus chr1:216,210,154-216,210,163 + ATTAACTTAT – ATAAGTTAAT
ENSMUSG00000048456_TBEL Orthologue Tupaia belangeri ENSMUSG00000048456_TBEL:400-409 + AGTAACCTCT – AGAGGTTACT
ENSMUSG00000048456_XTRO Orthologue Xenopus tropicalis scaffold_94:2,108,473-2,108,482 – TGTAATCTAT + ATAGATTACA

Questions or comments: cisred@bcgsc.ca