GgaINT0069613 @ galGal3
Intron Retention
Gene
ENSGALG00000013646 | VPS37A
Description
NA
Coordinates
chr4:64990448-64991383:-
Coord C1 exon
chr4:64991309-64991383
Coord A exon
chr4:64990563-64991308
Coord C2 exon
chr4:64990448-64990562
Length
746 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
AGTTATTCTTGTATTTACAGCTT
3' ss Score
6.66
Exon sequences
Seq C1 exon
CATTGCAGAAATTCAGAAAGATGTGGAATATCGACTGCCGTTCACTGTAAACAACTTCACAATTAATATTAACAT
Seq A exon
GTAAGTAGAATGGGATCTCTCTAAATGCACGTCTGAAAAATTATATATATTTTTTATGTTCCATTATGGTAATGGAACATAAGGAAGTCCATCTCATAACTAATTTCAGGAACTACTGCCCCAATTTGCCTTAGTAGTCTTAGTAATCTGAGTGAAACTTGCTCTGTCCATGATGCACATGCTCAGGTCAAAGCCTAATTATATTTTGCCATGCTCAGTTCCTTACCACAGTGAAGCTTCTGGATCAGAGTTTGAAAGTGATTTGTTGTAATATACCCTATGAATTTGCTTGTGGTGAGGGGGTGCTTCTGCTTTGGTAAATGTTGATAACATTCAATTCTCAGGTTTTTTATTACTCAGCCCCCCAGTTTTGCTAACTTACCTGATACTCTTGCAAGCTACGCTGCATTGCCTTTAGAGTAATACAATTTGTGTGAAAGTATTCTCAACACATTATAGCTTCTCCTCTGTCAGTGGACATAATTGCATCACTGTTATCCTACAGCTCTTCTCAGTAAATGCTCTTGTGTTCCATGAAAATGTAGTATTCTAATCTCTGTGAAGTTTCATTACTGACTTCTGATTTTGTAGCTGAATAATCTTCTCTTGTACTCCATGCTGTATCTCTGTACCTTTTTTTCATAGAAGAGTGTGGTTATGTGAATTACTGTGTTTTTTCCTTGCATAAGAAGCCTTCTAAAAGCACACTTTACGGGGTATAGTAACAGTTATTCTTGTATTTACAG
Seq C2 exon
CTTGCTTCCGCCTCAGTTTCCTCAGGAAAAACCAGTCATCAGTGTTTTCCCACCTGTGAGACATCACCTGATGGACAAGCAGGGAGTATATGTGACTGGTCCATTAATAAACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013646:ENSGALT00000022194:2
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=0.000
Domain overlap (PFAM):
C1:
PF057438=UEV=PU(22.2=69.2)
A:
NA
C2:
PF057438=UEV=FE(46.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTGCAGAAATTCAGAAAGATGTGG
R:
ATTGTTTATTAATGGACCAGTCACAT
Band lengths:
190-936
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]