DreINT0046783 @ danRer10
Intron Retention
Gene
ENSDARG00000052764 | chrnb3a
Description
cholinergic receptor, nicotinic, beta polypeptide 3a [Source:ZFIN;Acc:ZDB-GENE-040108-1]
Coordinates
chr1:21702656-21702901:-
Coord C1 exon
chr1:21702857-21702901
Coord A exon
chr1:21702766-21702856
Coord C2 exon
chr1:21702656-21702765
Length
91 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATA
5' ss Score
7.96
3' ss Seq
GTTTAATCACTTTTTTGCAGGAG
3' ss Score
6.54
Exon sequences
Seq C1 exon
GATGAAAAAAATCAACTGATGACCACAAATGTCTGGTTGTGGGAG
Seq A exon
GTAATACAAAGATAATTAGCTTTTTATGTTTAAGTATGTATCATAATACCTTCTTGATTGATTATTTATTTGTTTAATCACTTTTTTGCAG
Seq C2 exon
GAGTGGACAGACTACAAACTGCGCTGGAATCCAGAAGACTATGGGGGAATCACATCTATCAGAGTACCCTCAGAAACGATTTGGCTGCCAGATATTGTCCTTTATGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052764:ENSDART00000074678:3
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(6.8=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.6=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:
AATCAACTGATGACCACAAATGTCTG
R:
TCATAAAGGACAATATCTGGCAGCC
Band lengths:
143-234
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]