DreINT0174207 @ danRer10
Intron Retention
Gene
ENSDARG00000017119 | vps37a
Description
vacuolar protein sorting 37A [Source:ZFIN;Acc:ZDB-GENE-030131-8312]
Coordinates
chr1:15773909-15774197:+
Coord C1 exon
chr1:15773909-15773983
Coord A exon
chr1:15773984-15774079
Coord C2 exon
chr1:15774080-15774197
Length
96 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
ATGTTGGTTGTTGTCTACAGCTT
3' ss Score
7.5
Exon sequences
Seq C1 exon
TATTGCAGAAATCCAGAAGGATGTAGAGTACAGACTTCCTTTTACTGTCAACAATTCAACTATTACTGTCAATAT
Seq A exon
GTAAGTAAATATATATTTATTCTTAATTTATTTATTCAAACGCACCTGCACAGTTTCGGTATTAACATATTGTGTGATGTTGGTTGTTGTCTACAG
Seq C2 exon
CTTGCTCCCCCCACAGTTCCCTCAGGAGAAACCAGTGGTTAGTGTTTTTCCTCCAGTGGGTCATCATTTAGTAGACGGCAACAATGGAACAATGGTTACCAGCCCACTCATAGCTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017119:ENSDART00000078675:2
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=0.061
Domain overlap (PFAM):
C1:
PF057438=UEV=PU(21.0=65.4)
A:
NA
C2:
PF057438=UEV=FE(48.1=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:
TCCAGAAGGATGTAGAGTACAGACT
R:
GGGCTGGTAACCATTGTTCCA
Band lengths:
169-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]