GgaINT0124250 @ galGal4
Intron Retention
Gene
ENSGALG00000004142 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr17:5720688-5721414:+
Coord C1 exon
chr17:5720688-5720860
Coord A exon
chr17:5720861-5721319
Coord C2 exon
chr17:5721320-5721414
Length
459 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
TGATCCCCTCTCTTCTGTAGGTT
3' ss Score
10.34
Exon sequences
Seq C1 exon
GTTTCTACAACAGTGGAGACATTCCAAGACCTGTCACTCCCAATCCCAGGGAAGGAGGACCTGGCCAAGCTGCACTCTGCCATCTACCAAACAGTGCCAGCTAAGACAGGGGCATGTGGGGACAACTATGCCTCGCAAGGCTGGATTGCTTTCATCATGGAGTATATCCGGAG
Seq A exon
GTGTGTTCCCCGTGTGGGGGCTCTTTCTTCTGAGGTTTGCTCTGCAGTTTCCGAAAGGCAGCTGTTCCTAACCAGTGTGCTTTCAGCAGAAATGTTAGCTGTTCCCTGGAATAGGACAGCATGTGGTACCTCAGTTCTGTTTTGGTCTTTTCTTTTTCACATGAGCCAGTTGCTGCTGTTCCTCTACTTCTGTAATTGCCCTTGACGTCTCTTGTGCAGATGATGATCCCTCACTTCTGCCTTTAGCTCCATCATGCCCTCTGGAGCAAATTACCAGAGTAGCTGTGTGAATTACTTCCAGATTGAGCAGTTATAGTAGGAACATCACTTTCCCTGTGCCTTTGGGTTATGAGCTTAGAACCAGCAGCTAGAAGAAAGCCCATCTGCTGGGGGTTTTGTAAGCCAAATTGTCCAACTGTTTTCATGCAACTCTTTCTCCTGATCCCCTCTCTTCTGTAG
Seq C2 exon
GTTTGTGGTGTCCTGTATCCCTAGCTGGTTTTGGGGTCCTGTTGTGACACTGGAGGATTGTCTTGCTGCCTTTTTTGCAGCGGATGAGTTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:13
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:
PF0044324=UCH=FE(10.7=100)
A:
NA
C2:
PF0044324=UCH=FE(6.0=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:
TCTACAACAGTGGAGACATTCC
R:
CTTTCAACTCATCCGCTGCAA
Band lengths:
265-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]