DreINT0035479 @ danRer10
Intron Retention
Gene
ENSDARG00000035538 | atp6v0a2a
Description
ATPase, H+ transporting, lysosomal V0 subunit a2a [Source:ZFIN;Acc:ZDB-GENE-091113-4]
Coordinates
chr10:8074069-8074768:-
Coord C1 exon
chr10:8074506-8074768
Coord A exon
chr10:8074267-8074505
Coord C2 exon
chr10:8074069-8074266
Length
239 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TCGCACACTTGATGAGGCAGGTT
3' ss Score
-2.09
Exon sequences
Seq C1 exon
AAAGTACTTGGCAACCCTTGGGCGCAATCTGTAACACCGGCAGAGCTCGTGCATAACGGGAGTGATCTTTTTATGCGATTAACTTAAACATAAGGCATCTTTTATACAGGCACGTTTTCAAGGCTAGAATAGCGTTAAGGTGTTGGTTCGTCAACACTTCTTCATCATCTCTATAAATCCTGCGCTATTTCTGTCGTTTCAATGGCAAGGCGGCAATTAAAGGTACAGACGCCTATCGATTATTATTGTCCAGCCAGCTAGAG
Seq A exon
GTAAGACTACGCGAATATTAAACCAGCAGTTCATTTTTATAATACAGTCACAATTTACACGAGCATGCTAAGAATACTAAGTAGGTTGCTAAAAATAGGATTTGTGGGTTAATCGTTTTCGGTGCAGTTTAAGCCCGGTTTATTTAGGCATGCATCTTTAATGCACGCTTCAGCAGGTCAACTTTAGTCTTAATGCGCGGATGTTGAATGCGGCTTGTGTCGCACACTTGATGAGGCAG
Seq C2 exon
GTTGCTCGTGCTGTGTCGGAGTGAATCTCGAAGGCCAGAGGCGGATTGGGTGATCCGGGTGTCCGGGAGAGGAGAGGGAAGATGGGCTCGGGGTTTCGGAGTGAGGAGATGTGCTTGGCGCAGCTGTTCCTGCAGTCCGGCTCGGCGTACGCCTGCATCAGCGAGCTGGGGGAGATGGGACTGGTCGAATTTCGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035538:ENSDART00000140476:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0149614=V_ATPase_I=PU(1.6=33.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTACTTGGCAACCCTTGGG
R:
CGAGATTCACTCCGACACAGC
Band lengths:
292-531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]