DreINT0035507 @ danRer10
Intron Retention
Gene
ENSDARG00000035565 | atp6v0a2b
Description
ATPase, H+ transporting, lysosomal V0 subunit a2b [Source:ZFIN;Acc:ZDB-GENE-060526-4]
Coordinates
chr5:24057064-24057375:+
Coord C1 exon
chr5:24057064-24057183
Coord A exon
chr5:24057184-24057257
Coord C2 exon
chr5:24057258-24057375
Length
74 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGA
5' ss Score
5.24
3' ss Seq
AGTTTCCTCTTCTCCTGCAGCCT
3' ss Score
9.17
Exon sequences
Seq C1 exon
GGTTACCAGCGTGTGCGCAGGAGCAGTGAGGAGGAGCTTTCTCTCTTGCACACTCATGACTTGGAGGAGGGCAGCAGTCTGGACAGCCACTCTTCCAGCTCTGACAGCCAATCAGAAGAG
Seq A exon
GTCAGACACTCTCAGCCAGCTGTTAATAAACTGCATTCTCTATGAGCCTAACAAAGTTTCCTCTTCTCCTGCAG
Seq C2 exon
CCTGATTTTCCGGATCTGTTTCTTAATCAGTCCATTCACACGATTGAGTATTGCCTTGGCTGCATCTCTAATACTGCGTCTTACCTCCGCCTGTGGGCTCTCAGCCTGGCACATGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035565:ENSDART00000029699:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(4.8=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(4.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGTGAGGAGGAGCTTTCT
R:
TTAGAGATGCAGCCAAGGCAA
Band lengths:
170-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]