RnoINT0036363 @ rn6
Intron Retention
Gene
ENSRNOG00000003777 | Chrne
Description
cholinergic receptor nicotinic epsilon subunit [Source:RGD Symbol;Acc:2353]
Coordinates
chr10:57239736-57241141:-
Coord C1 exon
chr10:57241027-57241141
Coord A exon
chr10:57239851-57241026
Coord C2 exon
chr10:57239736-57239850
Length
1176 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TCATGCTTCCTGTATATCAGGTA
3' ss Score
7.39
Exon sequences
Seq C1 exon
CTGGTGGCCAGAAATGCACGGTCTCTATCAACGTCCTGCTAGCCCAGACTGTCTTCTTGTTCCTAATTGCCCAGAAAATTCCAGAGACTTCTCTGAGCGTGCCGCTGCTGGGCAG
Seq A exon
GTAATCTCAAAGTAGGTCCCACAGAGATGGGGGCCTGCATGGAGGATGGTGCCAAAGAAGGCTTGCACAGGGACTTGGTATCATCCCGTTCTGGACTTTTATTTGGACACAGGGTGGGCCTGGGACAGTGATGGATTATCTGTCCCCCCATTCTCCTCACTGTTGCTGGACGACACCTTGAGGTTTCCCGAGTATCTCTGTTGAGAGGACAGTATAGCTCAGTATCTCCTTAATCATACCTCCTCTGACCCTCATCATACCCTTTATCCCAAACGCACCGGATCCCCAGGGACCCCAAGGCCCAGTTGGCGAAGGGTTTGTTGCAGGGATGAGGTAGACCCGTGCAAACCACGTCCACACAGGTACAACCACGCCCCCTGGATCAGGTACCGGGCACTTGCGCCAGCTGCTGCTCCAGCTTGCCGAATCCCCTGCCCTGCTGCCAGGGCTACACGGGCCAGCGCCCTACCAGGATCCCCAGTGTCCAGGGCTGGGTCTGGGCAGCCGTTGCCTCTCTCCAGTCGCTGCACCTCCTGCTGTAGCCACAGGGCTGAGATCTGCATTGGGGCACATGGGATAGAGGTCCCTCCTTTTTCTGGCATAGTCCTCTCCCCCTTTTCTTCCCATCTCTCAACTTCCCAGAGCTTCACCTCTAACAAGGTGGCTCCAAAGCTCATGAGGCTGGCTGCAGCTTCTCTTAGCACCAGTCCTAAGGAGGCTGTCTGCGTAGGCAGCTTGTCAGATTCTAGGGGGTCCTGGGATTTAAGCTCTCTGAACCTTTGTACCAGATATTCGTGAGCCGCAGCCACAGCAAGTTCCAGGGAAGAGAGAAGTGGAGGCTGTAGGGCCACCTGGAGGAGCAGGGGTAGTGGAAAGGGTCACAGCAGGAAGCGCTGGAGACCTCTCCAGATGCTGCCTTTGGATGGGCCATTCTCATATCCTCACCTCAGTGGAGCTGTGGAAGTGGTAGACCCACAGCAGGGTGTCCAAATTGCTGGGAACCCCCTTCATGGCTGCAACAGATGGTACATGCAGACGGACGGGACAATACTGGCATCATCAAGGGGTGGCAAGAAGTAACACCACCAGTTCTGCAGAGGTGATATTTGTGAGGTAGAGGACAGCTAGCGCCTTCTGTTTGTGGGATGCCGTGACATCATGCTTCCTGTATATCAG
Seq C2 exon
GTATCTTATTTTTGTCATGGTGGTTGCCACGCTCATTGTCATGAATTGCGTCATCGTGCTCAACGTATCTTTGCGAACGCCAACGACTCACGCCACATCCCCTCGGCTGCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003777:ENSRNOT00000005050:8
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:
PF0293211=Neur_chan_memb=FE(16.6=100)
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:
TGGTGGCCAGAAATGCACG
R:
CAGCCGAGGGGATGTGGC
Band lengths:
223-1399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]