GgaINT0143143 @ galGal4
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
V-type proton ATPase 116 kDa subunit a isoform 1 [Source:RefSeq peptide;Acc:NP_990055]
Coordinates
chr27:4951241-4951988:+
Coord C1 exon
chr27:4951241-4951358
Coord A exon
chr27:4951359-4951816
Coord C2 exon
chr27:4951817-4951988
Length
458 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CCTCCCTTTTCTCCTGGCAGAGC
3' ss Score
11.24
Exon sequences
Seq C1 exon
TTTGACTTTGCTGACACTGTGGTGTACCAGGCCATCCACACTATTGAGTACTGCCTGGGGTGCATCTCCAACACTGCGTCCTACTTGAGGCTCTGGGCTCTCAGCTTAGCCCATGCAC
Seq A exon
GTGAGTATTCCTGGAGTGGAAATTGAGCTCATTGTCACCAATGGACCTGGAATGGTGATATGCAAAGGGCAGCAGTGCAGGTAGCTTCCCTAGAGCTCAGCTCTGCAGTGTCGGGTACTGCTGGAGAAGGGCAGAGCTGGCAGTAATCAGGTGTAAACACCACTGTCTACATGCACAGCACCCTGCTATAACAGGTGCTTCGCTCTGGAAGGAGGGATGGGATTGGAAGTGCTGAATGAAGCAAAGAGCTGCTGACCAGTGGGTCTGCACTGCATGCAGCAGTGGGCAGCCATGTCCTGACATACTTGCCTGCAAAAACTCGTCTCCTCTAAGTTTCCCACTTCATTATGGTGGAAGGTTTTTTCTCGACTTCAGTTTGTGCTGCATAAGAAAACTGCAGCTCTCTCTTCTTGTTGGATGCTCTGAAATGAGTCCTCTCCTCCCTTTTCTCCTGGCAG
Seq C2 exon
AGCTCTCGGAGGTGCTCTGGACCATGGTGATCCACACTGGGCTCAGCGTGAGGAGTCTGGCTGGAGGCTTTGGCCTTGTCTTCATTTTTGCTGCTTTTGCTACCCTGACGGTAGCGATTCTCCTGGTCATGGAGGGCCTGTCTGCTTTCCTCCATGCTCTTCGCTTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005154:18
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:
PF0149614=V_ATPase_I=FE(4.9=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(7.1=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:
TGACTTTGCTGACACTGTGGT
R:
GTGCAAGCGAAGAGCATGGAG
Band lengths:
286-744
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]