Motif craRnor10115 |
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Currently, this page only shows information about a motif if it:
+ has a discovery p-value < 0.25
Filters based on species and motif discovery algorithms are not applied to the contents of this page.
Currently, this page only shows information about a motif if it:
+ has a discovery p-value < 0.25
Filters based on species and motif discovery algorithms are not applied to the contents of this page.
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 ContentsOverviewSequence Conservation |
| Motif overview | |
| craRnor10115 | |
| Discovery p-value | 1.14E-01 |
| chr7: 116,390,182-116,390,205 (-) (24 bp) | |
| chr7: 116,389,953-116,391,652 (-) (1,700 bp) | |
| Rat, Ensembl v22 (RGSC 3.1) | |
| 4 species: Pongo pygmaeus, Felis catus, Loxodonta africana, Rattus norvegicus | |
| OPTICS/BOSS not in a cluster | |
(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 |
No annotation-based modules exist in this database.
No 'de novo' modules contain this motif. |
Sequence Conservation
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| GTACTCCTTGCGGGCnT... | ACCCGnGAnGCCCGCAA... | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Position frequency matrix
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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 |
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| ENSRNOG00000000186_PPYG | Orthologue | Pongo pygmaeus | ENSMUSG00000044986_PPYG:349-372 | – | GTACTCCTTGCGGGCCT... | + | ACCCGAGAGGCCCGCAA... |
| ENSRNOG00000000186_FCAT | Orthologue | Felis catus | ENSMUSG00000044986_FCAT:485-508 | – | GTACTCCTTGCGGGCCT... | + | ACCCGCGAGGCCCGCAA... |
| ENSRNOG00000000186_LAFR | Orthologue | Loxodonta africana | ENSMUSG00000044986_LAFR:685-708 | – | GTACTCCTTGCGAGCTT... | + | ACCCGTGAAGCTCGCAA... |
| ENSRNOG00000000186 | Target | Rattus norvegicus | chr7:116,390,182-116,390,205 | + | GGACTGAGTGCGGTGGG... | – | GTCTCCACCCACCGCAC... |