GgaINT1009471 @ galGal4
Intron Retention
Gene
ENSGALG00000003005 | CHRNB4
Description
neuronal acetylcholine receptor subunit beta-4 precursor [Source:RefSeq peptide;Acc:NP_990150]
Coordinates
chr10:3110358-3110637:+
Coord C1 exon
chr10:3110358-3110402
Coord A exon
chr10:3110403-3110527
Coord C2 exon
chr10:3110528-3110637
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TTGTACAATTCCTCTCTTAGGAG
3' ss Score
7.53
Exon sequences
Seq C1 exon
AACGAACGAGAGCAGATCATGACTACAAATGTCTGGCTAAACCAG
Seq A exon
GTAATAGAACCCACAGAAGCATGCTCTTGTAATCCATAAACGCCACTGCTTTCACTCCATCATAGTGACTGTTTTGTTTGTCTGGTCTGGATACTCCCATCACAATTGTACAATTCCTCTCTTAG
Seq C2 exon
GAGTGGATTGATTATCGTTTGGCTTGGAAACCTTCTGACTACGAAGGAATAAATATGCTGAGAATACCTGCAAAACATATCTGGCTCCCAGACATTGTGCTTTACAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003005:ENSGALT00000039804:3
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(17.5=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:
ACGAACGAGAGCAGATCATGAC
R:
AAAGCACAATGTCTGGGAGCC
Band lengths:
147-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]