DreINT0035476 @ danRer10
Intron Retention
Gene
ENSDARG00000015174 | atp6v0a1b
Description
ATPase, H+ transporting, lysosomal V0 subunit a1b [Source:ZFIN;Acc:ZDB-GENE-050522-215]
Coordinates
chr24:7595555-7596216:-
Coord C1 exon
chr24:7596090-7596216
Coord A exon
chr24:7595638-7596089
Coord C2 exon
chr24:7595555-7595637
Length
452 bp
Sequences
Splice sites
5' ss Seq
ACAGTCAGT
5' ss Score
0.29
3' ss Seq
TGGATCTTTGTTTGCCACAGGGC
3' ss Score
8.94
Exon sequences
Seq C1 exon
ATTTGTGGCTGGTGTCATCAACCGTGAAAGAATCCCTACGTTTGAAAGGATGCTGTGGCGAGTCTGCCGTGGAAATGTCTTTTTACGTCAGACAGAGATTGAGGATCCCCTTGAAGACCCCACAACA
Seq A exon
GTCAGTGCCTATTATTTTTTCGATTAAAATATTTGCATTTGAAATGTTTAGTGCTGGTCTATGATTAAGTGTGATTGATCACATGTAAAAATAAAAACAGAGCAAGGAGTTTTTCACAGTATTTCCTGTAATGTTTTTTCTTCTTCGTCTTATTTGCTTTACTTCAGCTTGGATAAAAGCAGTTTCTAATTTTTTCTAAAAGCATTTTAAGGTCAATATCATTAGCCCCCTTAAGTAATATTGTTTTTTGATTGTCTACAGAACAAACCACTGTTATACAATGACTCGCCTAATTACCCTATCTTGCCTAATTAATCTAGTTAAGACTTTAGATTGCACTTTAAGCTGAATATTTGATATAGATCACAGAGAATCATTCCCAAGTACTAGAAAGTTTGTTTACAAGTTAGATAACATTGACAACACAAGTCATGGATCTTTGTTTGCCACAG
Seq C2 exon
GGCGATCAGGTGCACAAATCGGTGTTCATCATCTTCTTCCAAGGAGACCAGCTGAAGAACAGAGTGAAAAAGATCTGTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015174:ENSDART00000041714:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.186 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(11.3=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.4=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:
TTGTGGCTGGTGTCATCAACC
R:
CCTTCACAGATCTTTTTCACTCTGT
Band lengths:
208-660
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]