RnoINT0036358 @ rn6
Intron Retention
Gene
ENSRNOG00000003777 | Chrne
Description
cholinergic receptor nicotinic epsilon subunit [Source:RGD Symbol;Acc:2353]
Coordinates
chr10:57242494-57242749:-
Coord C1 exon
chr10:57242705-57242749
Coord A exon
chr10:57242604-57242704
Coord C2 exon
chr10:57242494-57242603
Length
101 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CTTTTGTCCCCACTTCTTAGGAA
3' ss Score
9.23
Exon sequences
Seq C1 exon
AATGAGAAAGAAGAGACTCTGACCACCAGTGTCTGGATTGGAATT
Seq A exon
GTGAGTCAGATGTGGGGAGCAGTTGGAGGGTTCCCAGCCAGCCTTTCTTTTCTGCCAGGTGGGAGATTGAGAGCACGTACCCTTTTGTCCCCACTTCTTAG
Seq C2 exon
GAATGGCAAGACTATCGGCTCAACTTCAGCAAGGACGATTTTGCAGGCGTAGAAATCCTGCGGGTCCCTTCCGAACATGTATGGCTGCCAGAGATTGTTCTGGAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003777:ENSRNOT00000005050:3
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(6.5=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=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:
ATGAGAAAGAAGAGACTCTGACCAC
R:
CAGAACAATCTCTGGCAGCCA
Band lengths:
146-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]