GgaINT0046841 @ galGal4
Intron Retention
Gene
ENSGALG00000009301 | CHRNA1
Description
Acetylcholine receptor subunit alpha [Source:UniProtKB/Swiss-Prot;Acc:P09479]
Coordinates
chr7:16306662-16307085:+
Coord C1 exon
chr7:16306662-16306771
Coord A exon
chr7:16306772-16306889
Coord C2 exon
chr7:16306890-16307085
Length
118 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
CATCCTTCTTCCTTCCGCAGTGC
3' ss Score
11.38
Exon sequences
Seq C1 exon
CAATGGACAGACATAAACCTGAAGTGGAACCCAGATGACTACGGTGGCGTGAAACAAATCCGCATCCCATCAGATGACATCTGGCGCCCAGATCTTGTCCTTTACAACAA
Seq A exon
GTAAGCAGTGGTGAGCAGAGCTGGTGGGACCAGAGCCTGGGCAGCGGCTGCTTTGCCTGCTCAGCCTGGCTGTCCTCTGGCCACTGGGCGACCGCAACCATCCTTCTTCCTTCCGCAG
Seq C2 exon
TGCAGATGGCGATTTTGCCATTGTTAAATACACCAAGGTCCTTCTGGAACACACAGGAAAAATCACCTGGACGCCTCCTGCTATCTTTAAAAGTTACTGTGAAATTATAGTCACGTACTTCCCATTCGATCAGCAGAACTGTAGCATGAAGCTGGGAACGTGGACGTATGACGGTACAATGGTGGTTATCAACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009301:ENSGALT00000015138:4
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(17.3=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(31.2=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:
GATGACTACGGTGGCGTGAAA
R:
GTCCACGTTCCCAGCTTCATG
Band lengths:
242-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]