GgaINT0057997 @ galGal4
Intron Retention
Gene
ENSGALG00000005197 | VPS37C
Description
vacuolar protein sorting 37 homolog C (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:26097]
Coordinates
chr5:442349-443221:+
Coord C1 exon
chr5:442349-442520
Coord A exon
chr5:442521-443138
Coord C2 exon
chr5:443139-443221
Length
618 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TCTGCTGCTCTTTTCCCCAGAGA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GTGCAGGAGCTGCAGCTGGAGAGGGAGATGGCACTCGCTGCCAACCGCAGCCTTGCTGAGCAGAACCTGAAGTTCCAGGTCCCGCTGGAGACCGGACGTTCTGAGCTCTCCAGCAAGTATGAGGAGCTGCAAAAGCTCGCCGAGCACTGTAAGGAGCAGAAGGCAAAGCTGG
Seq A exon
GTGAGTGACTCCAGTCTCGCTTCCTTTCGTAGAATTGCAGAACCACACAATGGTTGGGTTGGAAGGGACCTCAAAGCCCTCCCCTCTCCCCCAGCCCCAGTTCCTGCCGTGGGCTGGTTGTCCCCCAGCAGATCGGGCTGCCTGGGGCCACATCCAGCCTGGCCCTGGGTATCTCCAGGGATGGGGCACCCACAGCTCCCTTGGACAGCTGTGCCCGGGCCTCACCGCCCTCTGAGTAAATAATTTCCTCCTTACACCTAACCTAAATTTCCTATCTTTTAGTTTTAAACCCTTCTCCCTTCATTCTGTCCCTCTGCCTGTGTAAAAGATCTTCCTCCCCTGTTTATAAGCTGCCTTTAGGTACCAATCAGGTGTGGCAGTGGTTAAGGCTGTTTCCTCGTCAGATTTTTTCCTTACACCAACATTTTCCAAGGCAGGAAGGCGCTCTTGGAAGTGCACGTGGGGCACAGAAACGTGACAGTGAGGAAGAGAGCTCCTTCTGCTTTAGGTTTTCCTTGTGTCACAGTGCAAAGCTGTGCGATAGGTGACAGGCTCTGTTGGACAGGTCAGTGTTTTTGCCCTGTTCTGTGTTTATTTCTCTGCTGCTCTTTTCCCCAG
Seq C2 exon
AGAAATTTTCAGCCTCAATGCATCCTCAGATGTTGCTGGATCTCCTGCAGGTGGAAAGCCAAAAAATTGAAGAGGAGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005197:ENSGALT00000008347:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.357
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(38.0=100),PF133241=GCIP=FE(49.6=100)
A:
NA
C2:
PF072008=Mod_r=FE(18.0=100),PF133241=GCIP=FE(23.5=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:
CTGCAGCTGGAGAGGGAGAT
R:
GCTTTCCACCTGCAGGAGATC
Band lengths:
222-840
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]