FILTERS:
pvalue:0.1
Motif craMmus283946
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 craMmus283946
Discovery p-value 2.79E-03
Motif location chr2: 111,629,508-111,629,515 (+) (8 bp)
Search region location chr2: 111,629,453-111,631,299 (+) (1,847 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 15 species: Mus musculus, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Erinaceus europaeus, Homo sapiens, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Tupaia belangeri
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (3 annot.): POU1F1(3.90E-04) ,    HP1_site_factor(3.99E-04) ,    Lmo2(5.35E-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 AATCATCA TGATGATT
Position frequency matrix
1 2 3 4 5 6 7 8
A 15 15 0 1 15 0 1 15
C 0 0 0 8 0 0 14 0
G 0 0 0 2 0 0 0 0
T 0 0 15 4 0 15 0 0
A A T y A T C A
1 2 3 4 5 6 7 8
A 0 0 15 0 4 15 0 0
C 0 0 0 0 2 0 0 0
G 0 14 0 0 8 0 0 0
T 15 1 0 15 1 0 15 15
T G A T r A 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
ENSMUSG00000044560 Target Mus musculus chr2:111,629,508-111,629,515 + AATTATCA – TGATAATT
ENSMUSG00000044560_CJAC Orthologue Callithrix jacchus ENSMUSG00000044560_CJAC:645-652 + AATCATCA – TGATGATT
ENSMUSG00000044560_CPOR Orthologue Cavia porcellus ENSMUSG00000044560_CPOR:209-216 – AATTATCA + TGATAATT
ENSMUSG00000044560_DNOV Orthologue Dasypus novemcinctus scaffold_77005:2,889-2,896 – AATCATAA + TTATGATT
ENSMUSG00000044560_EEUR Orthologue Erinaceus europaeus ENSMUSG00000044560_EEUR:295-302 – AATTATCA + TGATAATT
ENSMUSG00000044560_HSAP Orthologue Homo sapiens chr14:19,458,144-19,458,151 + AATAATCA – TGATTATT
ENSMUSG00000044560_MDOM Orthologue Monodelphis domestica scaffold_12:31,905,542-31,905,549 – AATGATCA + TGATCATT
ENSMUSG00000044560_MMUL Orthologue Macaca mulatta SCAFFOLD118315:848-855 + AATCATCA – TGATGATT
ENSMUSG00000044560_OCUN Orthologue Oryctolagus cuniculus scaffold_128745:940-947 + AATCATCA – TGATGATT
ENSMUSG00000044560_OGAR Orthologue Otolemur garnettii ENSMUSG00000044560_OGAR:259-266 + AATCATCA – TGATGATT
ENSMUSG00000044560_PPYG Orthologue Pongo pygmaeus ENSMUSG00000044560_PPYG:255-262 + AATCATCA – TGATGATT
ENSMUSG00000044560_PTRO Orthologue Pan troglodytes Un_random:4,933,143-4,933,150 – AATGATCA + TGATCATT
ENSMUSG00000044560_RNOR Orthologue Rattus norvegicus chr3:97,219,606-97,219,613 + AATTATCA – TGATAATT
ENSMUSG00000044560_SSCR Orthologue Sus scrofa ENSMUSG00000044560_SSCR:308-315 + AATCATCA – TGATGATT
ENSMUSG00000044560_TBEL Orthologue Tupaia belangeri ENSMUSG00000044560_TBEL:303-310 + AATCATCA – TGATGATT

Questions or comments: cisred@bcgsc.ca