GgaINT0013247 @ galGal4
Intron Retention
Gene
ENSGALG00000005315 | RPUSD1
Description
RNA pseudouridylate synthase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:14173]
Coordinates
chr14:5983606-5983879:+
Coord C1 exon
chr14:5983606-5983708
Coord A exon
chr14:5983709-5983777
Coord C2 exon
chr14:5983778-5983879
Length
69 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
ACCCCTGGATCTTGTTGCAGGCT
3' ss Score
7.85
Exon sequences
Seq C1 exon
GTGAGGGGCCACGTTGACCAGAGCCGTATGACGATCCGCTATGCCATTGGAAAGAACACAGTGGAGGGCATGACCCACATGATGTGCATCGAGGGCACAGAGG
Seq A exon
GTGAGCAGCACACACACCCTGCTTGAACCCAGAGAGCTGGGCAGGGCTGACCCCTGGATCTTGTTGCAG
Seq C2 exon
GCTGTGAAAACCCCAAGCCGTGCCAGTCGGAGCTGATTGTGCTCGAGCACGGGTCGTACAGCGGAGATCCTGTAACCAAAGTACTGCTGCAGCCGCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005315:ENSGALT00000008518:3
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:
PF0084917=PseudoU_synth_2=FE(20.5=100)
A:
NA
C2:
PF0084917=PseudoU_synth_2=FE(20.5=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:
TGACCAGAGCCGTATGACGAT
R:
TGGTTACAGGATCTCCGCTGT
Band lengths:
167-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]