GgaINT0057998 @ galGal4
Intron Retention
Gene
ENSGALG00000005197 | VPS37C
Description
vacuolar protein sorting 37 homolog C (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:26097]
Coordinates
chr5:443139-444192:+
Coord C1 exon
chr5:443139-443221
Coord A exon
chr5:443222-443469
Coord C2 exon
chr5:443470-444192
Length
248 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGTACTGTCTTCTCTTCCAGAAA
3' ss Score
11.75
Exon sequences
Seq C1 exon
AGAAATTTTCAGCCTCAATGCATCCTCAGATGTTGCTGGATCTCCTGCAGGTGGAAAGCCAAAAAATTGAAGAGGAGTCTGAG
Seq A exon
GTGAGCTTAAGGTTTGAAACAATTAGCAGCTCGAGCGATTAGATCTCAGAGACTTGCAGTGACCCTCCCAAACCGAATCCCTTAAGTCAAGGATTATGTTTTCGTAGCTCGACATTGTTGCTCCAAAAAAGATTGGATTATTCTTTCTTTGCTTCCACGTGGTGCGGTGGTCCTCCGAGGGAGATGTCAGTCCCGAAGTGGATTTGTGGAGGCAGCACTGAGGGATGTTGTACTGTCTTCTCTTCCAG
Seq C2 exon
AAAATGGCTGAGAAGTTCCTGGAGGGTGAGGTGGCCCTGGAGACCTTCCTTGAGCAGTTCTCGGTGATGAGGAAGTTGTCCCACTTGCGCCGGGTCAGGGTGGAAAAGCTGCAGGAGGTGCTGCGGAAGTCACGAGCGCCACAGGAGCCTGTCAGGGACTCACAGCAGCAGCAGCAGCCTCCTTGTGTGCCCGTGGACCCACCGCAGCCGCTGCCCGTCCCATCAGGGGCTCCTTCCTTGCCGCTGCCCTACAGCCCGGCTCCAGCCATGCCGCTCGGCCCCACAGCACACGGAGCTCTCCCACCCGCTCCTTTTGCCGGTGCCCCACTCGCCACAGGAAACGTTGCTGCCTCTCAGCCCGGCACTCAGCCTGCCTTTCCCTACCAGCCTCCTCCGGGTGCCACGTACCCACCCTTGCAGGCTGCTGACTCCACACCAGGCTACCCCAAGCCTCCCCCAGGCGCCTCATCTGCACCAGCCTACTCCTGGTCTCCATCCCGGGGCCCACCGCGTGCCCCCTCCTTTCCCTCCACTCCACCACCCAGACCTGGCTACCCACCCTATGCACTCCCCGGGGCTGGGCGGCCACAGTGTCCCTACCCCACACAGCCTCCTCTCCCCAGTTTCCCGCTCCCCCCTCAGCCTCCCTATCCACCAGGGCCACCCTATGGGTACCACCCCCCACCTGGGAACCCCCCGCGCCCTGCTTGGCCCGGCAACTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005197:ENSGALT00000008347:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.357 A=NA C2=0.863
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.0=100),PF133241=GCIP=FE(23.5=100)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=14.9),PF133241=GCIP=PD(4.3=2.1)
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:
CCTCAGATGTTGCTGGATCTCC
R:
AAGGAAGGAGCCCCTGATGG
Band lengths:
299-547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]