GgaINT0069620 @ galGal4
Intron Retention
Gene
ENSGALG00000013646 | VPS37A
Description
vacuolar protein sorting 37 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:24928]
Coordinates
chr4:62746414-62747705:-
Coord C1 exon
chr4:62747637-62747705
Coord A exon
chr4:62746558-62747636
Coord C2 exon
chr4:62746414-62746557
Length
1079 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAA
5' ss Score
5.96
3' ss Seq
AGAAGTTTTTATTTTCTTAGAGT
3' ss Score
4.31
Exon sequences
Seq C1 exon
TATGAGCAACTCACACAGATGAAAGCAGCCTTTGAAAAAAAGATGCAAAGACAGCATGAACTTAATGAG
Seq A exon
GTATAATCTCTTCGTCTTAAGAATGCTTCGCTGAACTTAAGTTTTGATTTGTATCTTTGTCCAAACAGAATATTCTGATTAGATTCTAATTTTATGTGAAATAACAAGATTCACATCAAAGATGAAATAAAATGGTATGAAGTTCCAACCAGTTTGAGAGCAAAATAGTGTTAAGGTTGCACTGCTCTTTTTCTTACAGTACTGTAGAAACAAAGTTGGAAGGGGGTATGATAAGCATTTAGAGCTGCTCTTGAGTACTGTGGCATGGAGTTTTAAGAGTAAAATTACTTTTAAAGAAGGGTTTAATTAATTGTACCCATTTAACATAGCAAACTTGCAAAGACGTACCTGATTGAAATGATTAAAACTATTGCTGTAGAAACTTAAATTCTGTGATTCATTGTGTATGCTTACTTTGTGCAGCTTGTTGTATATGCTGTTGAGCTGGCTTCTGGCATTGAATTCCACGCTGTGTTGTTTCTTAGAGAGGGAGATCCATTTGGTCACTTAGACTTTCATGTAGTAAAATGTACAGCCACAAAGATGATAAAGGGCCTGGAGCACCTCTGTTATGTGGAAAGACTGAGTAACCTGGGTCTGTTCTGCTTTGAGAAAAGGAGACTGAGAGGGGATCTCATCAATATCTATAAATATCTAAGGTATGGGAGGTCAAAGGGATGAGGCCAAACTTTTTCAGCATTGTGCAGCGATAGGACAAGGAGAAACCGCCACAAACTGAAGCATAGGAAGTTCTGCACAAATGTGTGTAAGAACTTCTTCGTGGTAAGGGTGATGGAGCACTGGAACAGGCTGCCCAGAGAGGTTGTGGTGTCTCCTTCTCTGGAGACGATCGAGACCCATCCTGGACTCCTACCTGTGCAACCTGGTCTAGGGAGCCTGTTTTGCGGGGGGGTTGGACTAGATGATATCTAGAGAGAGGTCCTTTCCAGCCCCTACAATTCTGTGATTCTGTATTATTCACATATCCCATATTTATATAGCTATCTATCTTTTTTTCTTCTTGGAAATGTGGATTTAGATGGGCAGTGCAGTATTAATAGAAGTTTTTATTTTCTTAG
Seq C2 exon
AGTTGCAGTCCAAGTGCTCTGCAAGCCAGACTTAAAGTAGCTGCTCATGAAGCTGAAGAGGAATCTGACACTATTGCAGAAGACTTCTTGGAAGGCAAAACAGAAATAGATGACTTTCTTAGTAGCTTCATGGAAAAGAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013646:ENSGALT00000022194:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.435 A=NA C2=0.208
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(14.7=100)
A:
NA
C2:
PF072008=Mod_r=FE(31.3=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:
AGCAACTCACACAGATGAAAGCA
R:
CGTTCTCTTTTCCATGAAGCTACT
Band lengths:
209-1288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]