GgaINT0046839 @ galGal4
Intron Retention
Gene
ENSGALG00000009301 | CHRNA1
Description
Acetylcholine receptor subunit alpha [Source:UniProtKB/Swiss-Prot;Acc:P09479]
Coordinates
chr7:16305970-16306278:+
Coord C1 exon
chr7:16305970-16306115
Coord A exon
chr7:16306116-16306233
Coord C2 exon
chr7:16306234-16306278
Length
118 bp
Sequences
Splice sites
5' ss Seq
GTGGTAGGC
5' ss Score
5.59
3' ss Seq
TTTTGTTTTTTCCTTTCAAGGAT
3' ss Score
11.18
Exon sequences
Seq C1 exon
CCGGGCCGGCCCTGTGCTACGAGCACGAGACGCGCCTGGTCGATGACCTGTTCCGGGAATACAGCAAGGTGGTGCGCCCCGTGGAGAATCACCGCGATGCCGTCGTCGTCACCGTCGGGCTGCAGCTCATTCAGCTCATCAATGTG
Seq A exon
GTAGGCAGTGGGGAGGCGGAACCACCACATCATGTGCTATTGTCACATGCTCTCCTCCTTTAATCCCAATGCTTGCTACTTGTGTCTCCTTTCTCTCTTTTTGTTTTTTCCTTTCAAG
Seq C2 exon
GATGAAGTAAATCAGATTGTAACAACCAATGTGCGCCTGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009301:ENSGALT00000015138:2
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=PU(18.8=79.6)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGCCCTGTGCTACGAG
R:
CTGCTTCAGGCGCACATTGG
Band lengths:
186-304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]