DreINT0035462 @ danRer10
Intron Retention
Gene
ENSDARG00000015174 | atp6v0a1b
Description
ATPase, H+ transporting, lysosomal V0 subunit a1b [Source:ZFIN;Acc:ZDB-GENE-050522-215]
Coordinates
chr24:7589977-7590938:-
Coord C1 exon
chr24:7590778-7590938
Coord A exon
chr24:7590068-7590777
Coord C2 exon
chr24:7589977-7590067
Length
710 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
CTGTTTTGTATGTTTTGTAGGGA
3' ss Score
9.11
Exon sequences
Seq C1 exon
ATGTTTAACATGATTTTTGCTGGACGTTACATCATTCTACTGATGGGGATGTTCTCAGTCTACACCGGGCTCATCTATAATGACTGCTTCTCAAAGTCCCTCAACATGTTCAGCTCTGGCTGGAGTGTTCGACCCATGTTTGCACCTAATGGAAACTGGAC
Seq A exon
GTAAGTTTACAACTTCTCAACAACAAATAGGGTATACACCGAGCTAGTGTTTTTCCCATGCTGATAAACTTCCGGTGTGCTGTTATTGTGAGTTTTTATACGGTTCCTTTTACAGCATCGATGTTGTAATGTAATTCAAATACAATCAGTTAAATAGACATTGGCATTTATTTAGTTGCTCAAGCGTAAAACAAGGCAAAAAGCTGTTTACTCGCACGCACCCGTCAGAATCGGCAGGCTAGCGCAGAAGCTCCATTGAATTTACCAGGGTAAAATAAATGCTCATATTATAGAGATATGGTGGGGAAAATGTAATTTAATGCAGCGCTTCTTGGACAATCTGAGACCCACTTTATATCGGATATTACACAGCCAGTTGAGATCGCTGATTTTTAAAGAAAACAGATCTTAAACGCGCCGATTTTACAATGGCATTCAGTTCACCGGAAACGATTAAACCAGGTTAATTGCAAATTAAAAGTCCTATTAGCATGCTTCGGCATACACCCTATTGGTAAAACATCAGAACAAAATGAAAAAAACTCCAGTCATGTAGTCATTCTTTTACTATTCAGAATAAAAAAAACGACAAAACAGCTTAGAGATTTTTTTTAACGTGTAATGTTACACAATGCTTATAAATGATGAAATACTGATGCACATTTACCTGTTTATGAATTTAATATTCTTCTGTTTTGTATGTTTTGTAG
Seq C2 exon
GGACCAGACTCTGGAGAGTAATTCAGTTCTTCAGTTAAACCCGTCTGTTTCTGGCGTGTTTGGTGGCCCGTATCCTCTCGGCATCGACCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015174:ENSDART00000041714:13
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(6.6=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.7=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:
TGTTTAACATGATTTTTGCTGGACGT
R:
GAGAGGATACGGGCCACCAAA
Band lengths:
239-949
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]