DreINT0035504 @ danRer10
Intron Retention
Gene
ENSDARG00000035565 | atp6v0a2b
Description
ATPase, H+ transporting, lysosomal V0 subunit a2b [Source:ZFIN;Acc:ZDB-GENE-060526-4]
Coordinates
chr5:24052998-24053414:+
Coord C1 exon
chr5:24052998-24053116
Coord A exon
chr5:24053117-24053203
Coord C2 exon
chr5:24053204-24053414
Length
87 bp
Sequences
Splice sites
5' ss Seq
CTTGTGAGT
5' ss Score
7.15
3' ss Seq
TTTTTTTTTTTTTTGCGCAGGCA
3' ss Score
10.35
Exon sequences
Seq C1 exon
ATCTGGAACCTGGCATCAAACCGTCTCACCTTCCTAAACTCCTATAAGATGAAGATGTCTGTGATTGTAGGAATAATCCACATGACGTTTGGAGTCGTCCTTGGCATTTTCAATCACTT
Seq A exon
GTGAGTCTTACATTTTTTAATAGTTCAATATAAGATTTAATGACTTCTAACTCTTCAAATGTTTTTTTTTTTTTTTTTTTTGCGCAG
Seq C2 exon
GCACTTCAGACGGACAATCAATGTGTACCTGATTTTTCTTCCCGAGCTGCTCTTTCTGCTGTGTCTCTTCGGTTATCTGGTGTTCATGATCATCTATAAGTGGCTCTTCTTCACAGTCAGAGATTCTCAGACAGCTCCCAGCATCCTCATCCACTTTATCAACATGTTCCTGATGATGGGCGACTCTGGCCGACCACTCTATCCAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035565:ENSDART00000029699:14
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(4.8=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(8.6=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:
AACCTGGCATCAAACCGTCTC
R:
CAGAAAGAGCAGCTCGGGAAG
Band lengths:
171-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]