DreINT0035445 @ danRer10
Intron Retention
Gene
ENSDARG00000020847 | atp6v0a1a
Description
ATPase, H+ transporting, lysosomal V0 subunit a1a [Source:ZFIN;Acc:ZDB-GENE-030131-3027]
Coordinates
chr3:16811472-16812169:+
Coord C1 exon
chr3:16811472-16811688
Coord A exon
chr3:16811689-16812061
Coord C2 exon
chr3:16812062-16812169
Length
373 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TTCACCCTCTTTCTCTTCAGGTG
3' ss Score
13.37
Exon sequences
Seq C1 exon
GTACTTTCGTAAACCTCTGAACATCTACCTGGGATTTATTCCGGAGATCATCTTCATGGTCAGCCTGTTTGGCTACCTGGTGCTGCTCATTTTTTACAAGTGGATAGCGTATGATGCTAAAAGCTCAAGAGTAGCCCCGAGTCTTCTTATAACCTTCATCAACATGTGCCTCTTCAGCTACAATGATCCCACCAACAAACCGTTTTATACGGGACAG
Seq A exon
GTAAATCAAACATCAGTACACTGATAAAAGCAATAAAGTGAGTAAATCCATTGCCTTAAAAGTGACAAGTTGATGTTGCTTATGATATTGAAGTAATTCTGTTGTAACTGTTAAGTTCACTTAACTTAATTGCTTAGATTTATGCTAAGTTGAGGCAATGGGTTTACTCATTTTTTTTAAGGTTAAGGGGTCACACTTTACCATAAGGTTTCAGTAGTAATTATTAGCTAAAATTTTTATTAACTAACATTAACTAATACAACCTCACTGTAAAGTGTTACCAGTAAAGGCAGCTAAACATTTTTTATAGTGTATGCTTGACAAGTAAAATGACTTAACACTGAAGTTTGTCATTCACCCTCTTTCTCTTCAG
Seq C2 exon
GTGGTGATTCAGTGTCTGCTAGTTATTATAGCTCTCTCCTGTGTACCCTGTATGCTCATTGTAAAGACCCTAGTCATGCGCAGACAACACCTATGGAGAAGACACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020847:ENSDART00000017646:16
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(9.0=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(4.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTAAACCTCTGAACATCTACCTGG
R:
CAGGTGTCTTCTCCATAGGTGT
Band lengths:
318-691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]