GgaINT0007388 @ galGal4
Intron Retention
Gene
ENSGALG00000003194 | ATP6V0A2
Description
V-type proton ATPase 116 kDa subunit a isoform 2 [Source:RefSeq peptide;Acc:NP_990054]
Coordinates
chr15:4914018-4914723:-
Coord C1 exon
chr15:4914566-4914723
Coord A exon
chr15:4914109-4914565
Coord C2 exon
chr15:4914018-4914108
Length
457 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GTGGTTCTCTTTCACTGCAGTCT
3' ss Score
8.03
Exon sequences
Seq C1 exon
ATAATAAAAATGCTATTCGATGGCCGATACGTCATTCTATTGATGAGTTTGTTTTCTATATACACTGGTCTGATTTACAATGATTGTTTTTCAAAGTCGTTAAATATATTTGGTTCCGGGTGGAATGTTTCAGCAATGTTTGAACAGAATGTTTGGCG
Seq A exon
GTGAGTGGTATGCCTCTGTTTGCTATGCCATTAAAGCAAGAGTATTTCCTGCAGCAGGTTCATCCCCTGACCCCTTTAGCTGGTCTTTTATTTGAGAGTATTCATGAAATGTAGTGAAATCTAGGAAGACCTAGCTGAGGGCTCAGTCTCTTCTACACTTAAAATAAAAAAGTGCAGTAATAATTAAAAACAAAAAAATGCAAAAAGATAAAAGAGAGGTGATAGGTAATCCTTTAGGTGGTGGTTCTGCATTTTTTCTAAAAACAAATGGTGAGCTTCTAAAACAAAACTTTGTTTCAGAGGTAATCTAACAGTGTATCTTTCAAATATGATTTGAATTAAGCCCAAATAAAAGGTGGTTTTGTGTTTTTTTTACCAGCCAGACCATTTTTACTTAGAAATTGTTTTATTCTTTCCTAGTCGTGTCAGATCTGACTGTGGTTCTCTTTCACTGCAG
Seq C2 exon
TCTTGAGGATCTGAAGTCTCATCAGCTTTTAATGCTGGATCCAAATGTTACTGGTGTGTACAATGGAGCTTATCCCTTTGGAATTGATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003194:ENSGALT00000005063:12
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(3.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAAAAATGCTATTCGATGGCCGA
R:
CGGATCAATTCCAAAGGGATAAGC
Band lengths:
246-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]