GgaINT0057996 @ galGal3
Intron Retention
Gene
ENSGALG00000005197 | VPS37C
Description
NA
Coordinates
chr5:358187-358542:+
Coord C1 exon
chr5:358187-358300
Coord A exon
chr5:358301-358370
Coord C2 exon
chr5:358371-358542
Length
70 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTGTGGGCTCTGCTCCTCAGGTG
3' ss Score
8.62
Exon sequences
Seq C1 exon
GAGCCCACGGCTGCCGTGAGCATGGACACCCTGAAGGACCGTACTGTGGAGGAGCTGCAGGCACTGCAGGAGGATGCTGCGGAGATCGAGCGCTTGGCCCTGGAGTCCAGGGAG
Seq A exon
GTGAGCAGTGGGGCAGGCAGGTGAGGGCTGCGTGCGTGGCGCTGTGCTGACTGTGGGCTCTGCTCCTCAG
Seq C2 exon
GTGCAGGAGCTGCAGCTGGAGAGGGAGATGGCACTCGCTGCCAACCGCAGCCTTGCTGAGCAGAACCTGAAGTTCCAGGTCCCGCTGGAGACCGGACGTTCTGAGCTCTCCAGCAAGTATGAGGAGCTGCAAAAGCTCGCCGAGCACTGTAAGGAGCAGAAGGCAAAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005197:ENSGALT00000008347:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.474 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF072008=Mod_r=PU(18.0=71.1)
A:
NA
C2:
PF072008=Mod_r=FE(38.0=100),PF133241=GCIP=PU(62.6=98.3)
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:
GTGAGCATGGACACCCTGAAG
R:
TTCAGGTTCTGCTCAGCAAGG
Band lengths:
170-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]