GgaINT0123162 @ galGal4
Intron Retention
Gene
ENSGALG00000006706 | USP6NL
Description
USP6 N-terminal-like protein [Source:RefSeq peptide;Acc:NP_001026011]
Coordinates
chr1:5915933-5916181:-
Coord C1 exon
chr1:5916116-5916181
Coord A exon
chr1:5916033-5916115
Coord C2 exon
chr1:5915933-5916032
Length
83 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
TCTTGATTCTTTCATTGCAGACT
3' ss Score
8.68
Exon sequences
Seq C1 exon
GACTCTCAAGAGATGTCCACTAGCTTTTACACCACAAAATGGTTTTTCCAGTGTTTCCTTGATCGC
Seq A exon
GTGAGTATGTTTTCCATATTCTTTCTCTGTTTTTAATTGTGGGTTTGAACAGACTGTCTTCACTCTTGATTCTTTCATTGCAG
Seq C2 exon
ACTCCCTTTATGTTAAGCCTCAGGATATGGGATATCTACATACTTGAAGGAGAGCGGGTTCTCACTGCTATGTCGTACACAATTCTGAAGATACACAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006706:ENSGALT00000010845:12
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:
PF0056613=RabGAP-TBC=FE(10.0=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(15.7=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:
ACTCTCAAGAGATGTCCACTAGCT
R:
GTGTATCTTCAGAATTGTGTACGACA
Band lengths:
161-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]