GgaINT0007380 @ galGal4
Intron Retention
Gene
ENSGALG00000003194 | ATP6V0A2
Description
V-type proton ATPase 116 kDa subunit a isoform 2 [Source:RefSeq peptide;Acc:NP_990054]
Coordinates
chr15:4919710-4920239:-
Coord C1 exon
chr15:4920102-4920239
Coord A exon
chr15:4919811-4920101
Coord C2 exon
chr15:4919710-4919810
Length
291 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATA
5' ss Score
7.96
3' ss Seq
TCTTGCTTTTTCTTTTCTAGTAT
3' ss Score
10.84
Exon sequences
Seq C1 exon
GAACAGTTGCAGAAGCTGGAGACAGAACTGAGGGAAGTAAATAAAAACAAAGAGAAGCTGAGGAAAAACTTGATTGAACTCACGGAGTACACGTGCATGTTGGATGTCACACAAACGTTTGTCAGGAGAGCAGCTGAG
Seq A exon
GTAATACTGCAGTGTCTGGGTGGGATTGTGTGTTATGTGACAATCCTGTTGCACGCTGTGTTATTTTGATGTATAAATTGTTCTGAGACATTTATTAGGTAACTTTTGCAAAAGTGACTGTTAGCTGCTGAGTGATTCAGTTGAGATCCCAAGATCTCCCCGTTGCCTGAATTGAACACAGGAAATCATTTTGTATTTCTGTTGAAATAATTTAACTAACTTTTCTTCTTGAGAATAATAAATGATTTTTTTTCCTGAAAGCTATGATTGGTCTTGCTTTTTCTTTTCTAG
Seq C2 exon
TATGAGTCCCACTTGCATATAAATTATGAAGAATTTCCATCAGTGGAAAATGAGCCATTTGCAGATTACAACTGTATGCACAGACTGGGTGCCAAGCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003194:ENSGALT00000005063:4
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:
PF0149614=V_ATPase_I=FE(5.6=100),PF102244=DUF2205=PD(69.8=95.7)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(4.1=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:
AACAGTTGCAGAAGCTGGAGAC
R:
CAGCTTGGCACCCAGTCTG
Band lengths:
236-527
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]