RnoINT0036355 @ rn6
Intron Retention
Gene
ENSRNOG00000003777 | Chrne
Description
cholinergic receptor nicotinic epsilon subunit [Source:RGD Symbol;Acc:2353]
Coordinates
chr10:57239285-57239661:-
Coord C1 exon
chr10:57239475-57239661
Coord A exon
chr10:57239395-57239474
Coord C2 exon
chr10:57239285-57239394
Length
80 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
AGCGCTTGGTGTCGCCTTAGCAG
3' ss Score
2.16
Exon sequences
Seq C1 exon
ATTTTATTAGAGCTACTGCCGCGCCTCCTCGGCTTGAGCCCACCCCCAGAGGATCCCGGAGCTGCCTCACCAGCGAGGCGTGCCTCATCTGTGGGCATTCTGCTTAGAGCGGAGGAGCTCATCTTGAAAAAGCCGCGGAGCGAACTCGTGTTTGAGGGACAGAGGCATCGGCATGGAACTTGGACCG
Seq A exon
GTGAGCTCTTGGTGGGTCAAAGATACACACTTGCCAATTGGGGCCGCTCTTTTATGACCCAGCGCTTGGTGTCGCCTTAG
Seq C2 exon
CAGCCGCCCTCTGCCAGAACCTGAGTGCTGCAGCCCCTGAAGTCCGCTGCTGTGTGGATGCTGTGAACTTTGTGGCTGAGAGCACAAGGGACCAGGAAGCCACTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003777:ENSRNOT00000005050:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(27.1=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCGGAGGAGCTCATCTTGAA
R:
CCTTGTGCTCTCAGCCACAAA
Band lengths:
169-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]