RnoINT0036362 @ rn6
Intron Retention
Gene
ENSRNOG00000003777 | Chrne
Description
cholinergic receptor nicotinic epsilon subunit [Source:RGD Symbol;Acc:2353]
Coordinates
chr10:57241027-57241419:-
Coord C1 exon
chr10:57241219-57241419
Coord A exon
chr10:57241142-57241218
Coord C2 exon
chr10:57241027-57241141
Length
77 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TCACAGCTTGCTCCCTCTAGCTG
3' ss Score
5.8
Exon sequences
Seq C1 exon
AGAATGGAGAATGGGCCATTGACTACTGCCCAGGCATGATTCGCCATTATGAGGGAGGCTCCACAGAAGACCCTGGAGAAACTGACGTCATCTACACGCTCATCATCCGTCGAAAGCCGCTTTTTTACGTCATTAACATCATTGTGCCTTGTGTGCTCATTTCTGGCTTGGTGCTACTCGCTTACTTCCTACCTGCGCAGG
Seq A exon
GTAAGGGGTGATCCTGACTCCTGAACCCCAGGCTGGGCTTGCTCCTTGGCTTACCTCTCACAGCTTGCTCCCTCTAG
Seq C2 exon
CTGGTGGCCAGAAATGCACGGTCTCTATCAACGTCCTGCTAGCCCAGACTGTCTTCTTGTTCCTAATTGCCCAGAAAATTCCAGAGACTTCTCTGAGCGTGCCGCTGCTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003777:ENSRNOT00000005050:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(18.0=57.4),PF0293211=Neur_chan_memb=PU(9.2=30.9)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(16.6=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:
ACCCTGGAGAAACTGACGTCA
R:
TGGGCTAGCAGGACGTTGATA
Band lengths:
178-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]