GgaINT0143139 @ galGal4
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
V-type proton ATPase 116 kDa subunit a isoform 1 [Source:RefSeq peptide;Acc:NP_990055]
Coordinates
chr27:4944181-4944833:+
Coord C1 exon
chr27:4944181-4944299
Coord A exon
chr27:4944300-4944616
Coord C2 exon
chr27:4944617-4944833
Length
317 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGG
5' ss Score
6.57
3' ss Seq
CTCTTTTTATTTTCCTGTAGATA
3' ss Score
11.12
Exon sequences
Seq C1 exon
ATCTGGAATATTGCCAACAACAAACTGGCCTTCCTCAATTCATTTAAGATGAAAATGTCTGTGATTCTTGGCATTATCCACATGCTCTTCGGTGTCATGTTGAGTCTTCTCAACCACAT
Seq A exon
GTAAGGGCTTCATTCTGTTTTTCTGATGGGAGAGGAGAGAGTTTCTCTGAGTGTAGTTTGTGTACCGGCTTGAGATGCAGAAACCTCAGACTTTAACCTTCTGATTGAAGGGCATAGCAGTTATTTCTGTCTGTGTATGTATAACTGTACGTATCAAGTAATTAGCTGTGTTTAAGTCCTGGCTCTTACAGAAATGCACAGCCTCTGCAGTTTTGTTACAAAACTGCTTTTTCCTTCTCTTTTAAAGTTTTTGCCCTACATAAGACTAATGCAAACTAAATGTAATTTTAAACTTTCCTCTTTTTATTTTCCTGTAG
Seq C2 exon
ATATTTTAAGAAGCCACTGAACATATACCTTGGGTTTATTCCAGAGATGATTTTCATGTCCTCACTGTTTGGATACCTTGTTATTCTCATTTTCTACAAATGGACAGCCTATGATGCTCACACATCAAAGGAAGCCCCAAGCCTTTTAATACATTTTATCAATATGTTTTTATTTTCCTATGGTGATACCAGTAACAAGATGCTTTATAGAGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005154:14
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(10.4=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:
TCTGGAATATTGCCAACAACAAACTG
R:
CTGCCCTCTATAAAGCATCTTGT
Band lengths:
335-652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]