RnoINT0036361 @ rn6
Intron Retention
Gene
ENSRNOG00000003777 | Chrne
Description
cholinergic receptor nicotinic epsilon subunit [Source:RGD Symbol;Acc:2353]
Coordinates
chr10:57241219-57241792:-
Coord C1 exon
chr10:57241692-57241792
Coord A exon
chr10:57241420-57241691
Coord C2 exon
chr10:57241219-57241419
Length
272 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAAG
5' ss Score
4.01
3' ss Seq
CTGTGCCCTATGTCCTGCAGAGA
3' ss Score
9.09
Exon sequences
Seq C1 exon
TTCCCAGACCTACAATGCTGAAGAGGTGGAGTTCATCTTTGCAGTGGATGACGATGGCAATGCCATCAACAAAATTGACATCGACACCGCAGCTTTTACCG
Seq A exon
GTGAAGGGATATACCCTTTTCCCAAAAACCTTCTCCCAGATAAGATTCAAGGAGGGTGACTTTCAGTATAGGGCTTGACTTGAGCCACATAACCCGAAGCTGAGCTTCTTGAAGTTAGTCTAGACTGTCGTCATCAAATGTGCTGTTTCCAAACCCCACCAGAAATGCCCCTCTCTACCCATTTTGCCCCTAAGCAGACAACCCAGGTTTCAAGTGGCCTTCTTGGCCTGGAGTTACAGGTGTGTGGGCTGACTGTGCCCTATGTCCTGCAG
Seq C2 exon
AGAATGGAGAATGGGCCATTGACTACTGCCCAGGCATGATTCGCCATTATGAGGGAGGCTCCACAGAAGACCCTGGAGAAACTGACGTCATCTACACGCTCATCATCCGTCGAAAGCCGCTTTTTTACGTCATTAACATCATTGTGCCTTGTGTGCTCATTTCTGGCTTGGTGCTACTCGCTTACTTCCTACCTGCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003777:ENSRNOT00000005050:6
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=FE(15.7=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(18.0=57.4),PF0293211=Neur_chan_memb=PU(9.2=30.9)
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:
ACCTACAATGCTGAAGAGGTGG
R:
CTGCGCAGGTAGGAAGTAAGC
Band lengths:
294-566
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]