GgaINT0143130 @ galGal4
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
V-type proton ATPase 116 kDa subunit a isoform 1 [Source:RefSeq peptide;Acc:NP_990055]
Coordinates
chr27:4936102-4937156:+
Coord C1 exon
chr27:4936102-4936184
Coord A exon
chr27:4936185-4937029
Coord C2 exon
chr27:4937030-4937156
Length
845 bp
Sequences
Splice sites
5' ss Seq
TGGGTAATG
5' ss Score
5.68
3' ss Seq
TCACGCTGTCCCCTCTCCAGGTT
3' ss Score
10.64
Exon sequences
Seq C1 exon
ATGGCGGATCCAGACCTGTTGGAGGAATCCTCTTCGCTCCTGGAGCCAAGTGAGATGGGAAGAGGTGCCCCGCTACGGCTTGG
Seq A exon
GTAATGGCAATTTGTGCTTTCTTCTGTCTTGTGTTAACACAGCTGCCTTTTGGTCGCTCTGCAGAATCTGCAGTGATTTGAGCACTGTTGTTGCAGGATTTAGACTGGTGCTTGAAGCAGATGAAGGCTGACCTAAAACTGACTGTTGGTGTGTGTTCTTGTCCTGTATATGTGAACTTCACACTGCGTGAAGTTTCTCTCTACATGAGGAGTTGTACCAGTCTATTCCTTGTAAATCTGTTCTGTTTGCTTTTACAGACACTGGGCTCTCACAGCTTTGTTGAAACCAGTAACTGAGCACATACTACTGTGACAAAACTGTGGCTCTGTATCTTTGTCGCAGTTAGACCTAGTTCCCATGACAAGGGGGTGAAGGGACCCATGGATCCATGCCCTGGGGAGAAGCTGCTTCCAGGCTGTTTCCATACGTGTGTAACTCTTTGTGTGGACACAGGGATTTGAATCAGTGAGGTCTTCTGAAGCACATGCCTAGAACACAGTCAGTGGTAACCTTGACCGCTATAATCCTTCATGTGTGGCGTGCCAGGAACCTGGCAGAATGAGCGGTCATGGGCTTAGAAACTGTAGGCCTAAATGCATTTGTTTCCTCTTCTAATCAATAACATTTTTAGTAGACAATTTCATTCTGTTACGTCTCAGTGTTTGGTGTAGTGCAGTTGTTTTATCTCTGGGTATGGAGAGAAGAACTTCTCATAACATGTGTAAAGAATGACTTTCAAAATGAGGTTTCTGTAGCTTTCAGTGCGATGCTGAGCTCCAGCTGGTGTTATGGGTACGAGGCTGTGTGTGCTGTAAGTGTAGGGCTCACGCTGTCCCCTCTCCAG
Seq C2 exon
GTTTGTGGCTGGAGTGATCAACCGCGAGCGAATCCCCACGTTTGAGCGCATGCTGTGGCGTGTGTGCCGGGGGAACGTCTTCCTGCGCCAGGCTGAAATTGAGAACCCCCTGGAGGATCCCGTAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005154:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(3.4=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(5.3=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:
GCGGATCCAGACCTGTTGGAG
R:
GTTACGGGATCCTCCAGGGG
Band lengths:
206-1051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]