GgaINT0143137 @ galGal4
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
V-type proton ATPase 116 kDa subunit a isoform 1 [Source:RefSeq peptide;Acc:NP_990055]
Coordinates
chr27:4942748-4943433:+
Coord C1 exon
chr27:4942748-4942905
Coord A exon
chr27:4942906-4943342
Coord C2 exon
chr27:4943343-4943433
Length
437 bp
Sequences
Splice sites
5' ss Seq
GTCGTGAGT
5' ss Score
7.82
3' ss Seq
ATCTACTTATACCCAAACAGAGA
3' ss Score
4.62
Exon sequences
Seq C1 exon
ATGTTCAACACTGTTTTTAGTGGTCGATACATCATCCTGCTGATGGGACTGTTCTCCACTTACACAGGCCTTATCTATAACGACTGCTTCTCCAAGTCTCTTAATATGTTTGGTTCATCATGGAGCGTCCGGCCGATGTTCTCAAAAGCCAATTGGTC
Seq A exon
GTGAGTAAATAGTTCTTAAGTGAGTGGAGTGTGACAGTGACAAGTAGGGGATTTATCTTTCACCATTGTCTTACCAACTCAAGAAGACAAAAACTTCTGAACTCAGTTTCAAGTGGAATAGGAAGAGGGGTGCAAATGTGATACCTCTGAAGTTTCAAATCTGTTTGTTTTCAGGAAACTCAAAGATGCACTTTAGCACTTTTCTTATCATTGACATAGCAAGATTCCTGTCCCTCAGTCTTTTCCTTATGACACAGAATAGCAGGTCAAGAGACAGGTTTCTTACTCAGTTGGCAGATCTTTAGAGCTGCATGGGAACCTTAAAGTTCTCTCATTTTGAGATATCCTTGCTCTCACAAGGGAGAATGTTACTAGTTTTAAAAGGAGGTCAATGTTGCTTATGCTAACATTTATATAATCTACTTATACCCAAACAG
Seq C2 exon
AGATGAATTGCTTAAGACTACTCCTCTGCTTCAGCTGGACCCTGCTGAAGCAGGAGTGTTTGGTGGACCCTATCCCTTTGGCATTGACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005154:12
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(6.5=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.8=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:
TGTTCAACACTGTTTTTAGTGGTCG
R:
CGGGTCAATGCCAAAGGGATA
Band lengths:
248-685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]