FILTERS:
pvalue:0.25
Motif craRnor38276
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 craRnor38276
Discovery p-value 5.49E-03
Motif location chr20: 35,423,578-35,423,583 (+) (6 bp)
Search region location chr20: 35,421,442-35,423,806 (+) (2,365 bp)
Assembly Rat, Ensembl v22 (RGSC 3.1)
Found in 14 species: Mus musculus, Pongo pygmaeus, Pan troglodytes, Homo sapiens, Sus scrofa, Canis familiaris, Bos taurus, Dasypus novemcinctus, Oryctolagus cuniculus, Loxodonta africana, Echinops telfairi, Monodelphis domestica, Rattus norvegicus, Sorex araneus
Found with
'De Novo' motif group ID crtRnor: 5103
Similar to
(annotation p-value)		 There are 0 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (0 annot.): none
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 No annotation-based modules exist in this database.
No 'de novo' modules contain this motif.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence TTAAAA TTTTAA
Position frequency matrix
1 2 3 4 5 6
A 0 0 14 14 14 14
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 14 14 0 0 0 0
T T A A A A
1 2 3 4 5 6
A 0 0 0 0 14 14
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 14 14 14 14 0 0
T T T T A 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
ENSRNOG00000000805_MMUS Orthologue Mus musculus chr10:56,625,890-56,625,895 – TTAAAA + TTTTAA
ENSRNOG00000000805_PPYG Orthologue Pongo pygmaeus ENSMUSG00000050953_PPYG:650-655 – TTAAAA + TTTTAA
ENSRNOG00000000805_PTRO Orthologue Pan troglodytes chr5:124,282,597-124,282,602 – TTAAAA + TTTTAA
ENSRNOG00000000805_HSAP Orthologue Homo sapiens chr6:121,797,632-121,797,637 – TTAAAA + TTTTAA
ENSRNOG00000000805_SSCR Orthologue Sus scrofa ENSMUSG00000050953_SSCR:207-212 – TTAAAA + TTTTAA
ENSRNOG00000000805_CFAM Orthologue Canis familiaris chrX:14,520,664-14,520,669 – TTAAAA + TTTTAA
ENSRNOG00000000805_BTAU Orthologue Bos taurus SCAFFOLD324843:18,128-18,133 + TTAAAA – TTTTAA
ENSRNOG00000000805_DNOV Orthologue Dasypus novemcinctus ENSMUSG00000050953_DNOV:192-197 – TTAAAA + TTTTAA
ENSRNOG00000000805_OCUN Orthologue Oryctolagus cuniculus ENSMUSG00000050953_OCUN:218-223 – TTAAAA + TTTTAA
ENSRNOG00000000805_LAFR Orthologue Loxodonta africana ENSMUSG00000050953_LAFR:294-299 – TTAAAA + TTTTAA
ENSRNOG00000000805_ETEL Orthologue Echinops telfairi ENSMUSG00000050953_ETEL:368-373 – TTAAAA + TTTTAA
ENSRNOG00000000805_MDOM Orthologue Monodelphis domestica scaffold_19215:1,385,481-1,385,486 – TTAAAA + TTTTAA
ENSRNOG00000000805 Target Rattus norvegicus chr20:35,423,578-35,423,583 + TTAAAA – TTTTAA
ENSRNOG00000000805_SARA Orthologue Sorex araneus ENSMUSG00000050953_SARA:106-111 – TTAAAA + TTTTAA

Questions or comments: cisred@bcgsc.ca