DreINT0046819 @ danRer10
Intron Retention
Gene
ENSDARG00000086647 | chrng
Description
cholinergic receptor, nicotinic, gamma [Source:ZFIN;Acc:ZDB-GENE-030131-3805]
Coordinates
chr2:45232552-45232899:+
Coord C1 exon
chr2:45232552-45232707
Coord A exon
chr2:45232708-45232801
Coord C2 exon
chr2:45232802-45232899
Length
94 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
GTCTCTGATTGCTTTGGCAGGTC
3' ss Score
7.86
Exon sequences
Seq C1 exon
TGTGGATGGGCGTTTTGAAGTGGCGCTCTATGCTAACACACTGATAGATCCTGATGGCAGTGTGTACTGGTTGCCTCCTGCCATCTACCGAAGCTCCTGTGCCATCAAAGTCAACTATTTTCCCTTTGATTGGCAGAATTGCAGCATGGTGTTCAG
Seq A exon
GTACAACGGATCCGTCTATCCTGACAGTGTGGCCTGCTGGAAATATATAAATGACACTCTTTATTCGGGGCGATGTCTCTGATTGCTTTGGCAG
Seq C2 exon
GTCTCAGACATACAATTCCAATGAAATTACCCTGATGCTGTCGGACGAGGACAACGTCACTATGGAATGGATTGAGATCGACCCAGAGGCTTTTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086647:ENSDART00000123966:5
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(23.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(15.0=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:
CATCTACCGAAGCTCCTGTGC
R:
AAGCCTCTGGGTCGATCTCAA
Band lengths:
167-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]