FILTERS:
pvalue:0.1
Motif craMmus29019
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 craMmus29019
Discovery p-value 2.79E-03
Motif location chr2: 61,734,980-61,734,991 (+) (12 bp)
Search region location chr2: 61,733,443-61,735,201 (+) (1,759 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 24 species: Mus musculus, Canis familiaris, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Nomascus leucogenys, Oryctolagus cuniculus, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Spermophilus tridecemlineatus, Tupaia belangeri, Tetraodon nigroviridis
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.): Chx10(5.12E-05) ,    S8(1.20E-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 TATCTAATTAAA TTTAATTAGATA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 0 20 0 0 0 24 23 0 0 23 24 23
C 0 0 0 24 0 0 0 0 0 0 0 0
G 0 3 0 0 0 0 1 0 0 0 0 0
T 24 1 24 0 24 0 0 24 24 1 0 1
T A T C T A A T T A A A
1 2 3 4 5 6 7 8 9 10 11 12
A 1 0 1 24 24 0 0 24 0 24 1 24
C 0 0 0 0 0 1 0 0 0 0 3 0
G 0 0 0 0 0 0 0 0 24 0 0 0
T 23 24 23 0 0 23 24 0 0 0 20 0
T T T A A T T A G A T A

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
ENSMUSG00000035033 Target Mus musculus chr2:61,734,980-61,734,991 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_CFAM Orthologue Canis familiaris chr36:9,993,827-9,993,838 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_CJAC Orthologue Callithrix jacchus ENSMUSG00000035033_CJAC:585-596 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_CPOR Orthologue Cavia porcellus ENSMUSG00000035033_CPOR:1,134-1,145 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_DNOV Orthologue Dasypus novemcinctus scaffold_2972:31,054-31,065 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_DRER Orthologue Danio rerio chr20:26,243,451-26,243,462 – TGTCTAATTAAA + TTTAATTAGACA
ENSMUSG00000035033_EEUR Orthologue Erinaceus europaeus ENSMUSG00000035033_EEUR:845-856 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_ETEL Orthologue Echinops telfairi scaffold_321537:6,955-6,966 – TATCTAATTAAA + TTTAATTAGATA
ENSMUSG00000035033_FRUB Orthologue Fugu rubripes chrUn:173,367,318-173,367,329 – TGTCTAATTAAA + TTTAATTAGACA
ENSMUSG00000035033_GGAL Orthologue Gallus gallus chr7:22,217,344-22,217,355 – TATCTAATTAAA + TTTAATTAGATA
ENSMUSG00000035033_HSAP Orthologue Homo sapiens chr2:162,098,151-162,098,162 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_LAFR Orthologue Loxodonta africana scaffold_23360:53,207-53,218 – TATCTAATTAAA + TTTAATTAGATA
ENSMUSG00000035033_MDOM Orthologue Monodelphis domestica scaffold_2:55,926,415-55,926,426 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_MLUC Orthologue Myotis lucifugus ENSMUSG00000035033_MLUC:1,380-1,391 + TTTCTAGTTTAT – ATAAACTAGAAA
ENSMUSG00000035033_MMUL Orthologue Macaca mulatta SCAFFOLD55283:67,063-67,074 – TATCTAATTAAA + TTTAATTAGATA
ENSMUSG00000035033_NLEU Orthologue Nomascus leucogenys ENSMUSG00000035033_NLEU:206-217 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_OCUN Orthologue Oryctolagus cuniculus scaffold_190239:36,747-36,758 – TATCTAATTAAA + TTTAATTAGATA
ENSMUSG00000035033_PPYG Orthologue Pongo pygmaeus ENSMUSG00000035033_PPYG:1,411-1,422 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_PTRO Orthologue Pan troglodytes chr13:51,475,591-51,475,602 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_RNOR Orthologue Rattus norvegicus chr3:43,552,384-43,552,395 – TATCTAATTAAA + TTTAATTAGATA
ENSMUSG00000035033_SSCR Orthologue Sus scrofa ENSMUSG00000035033_SSCR:1,273-1,284 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000035033_STRI:1,130-1,141 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_TBEL Orthologue Tupaia belangeri ENSMUSG00000035033_TBEL:980-991 + TATCTAATTAAA – TTTAATTAGATA
ENSMUSG00000035033_TNIG Orthologue Tetraodon nigroviridis chr2:11,980,165-11,980,176 – TGTCTAATTAAA + TTTAATTAGACA

Questions or comments: cisred@bcgsc.ca