RnoINT0036356 @ rn6
Intron Retention
Gene
ENSRNOG00000003777 | Chrne
Description
cholinergic receptor nicotinic epsilon subunit [Source:RGD Symbol;Acc:2353]
Coordinates
chr10:57238946-57239394:-
Coord C1 exon
chr10:57239285-57239394
Coord A exon
chr10:57239206-57239284
Coord C2 exon
chr10:57238946-57239205
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
CCATAAGCTCTCTCTCACAGGAA
3' ss Score
7.66
Exon sequences
Seq C1 exon
CAGCCGCCCTCTGCCAGAACCTGAGTGCTGCAGCCCCTGAAGTCCGCTGCTGTGTGGATGCTGTGAACTTTGTGGCTGAGAGCACAAGGGACCAGGAAGCCACTGGAGAG
Seq A exon
GTGGGTTGGGAGATTGAGGCGGAGCGGTGCTAGATGCCCCGCCCTCCAGGCACCTCCCTCCATAAGCTCTCTCTCACAG
Seq C2 exon
GAACTGTCTGACTGGGTGCGTATGGGGAAGGCCCTCGACAATGTCTGTTTTTGGGCAGCGTTGGTGCTCTTCAGCGTCGGTTCTACGCTCATCTTCCTTGGAGGTTACTTCAACCAAGTTCCTGATCTCCCCTACCCACCGTGCATCCAACCATGAGCCTGCACCAGGACCCACCTCATCCCCACCCCCCAAGAAAGAGATTTTGAAAACAGGCTGCTGACAATAAATCTGGTTTGTGAACTTGCAGGAGAGGTTGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003777:ENSRNOT00000005050:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(15.7=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.5=59.6)
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:
CTGCTGTGTGGATGCTGTGAA
R:
ACCTCCAAGGAAGATGAGCGT
Band lengths:
169-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]