BtaINT0158384 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020311 | USP20
Description
Bos taurus ubiquitin specific peptidase 20 (USP20), mRNA. [Source:RefSeq mRNA;Acc:NM_001105333]
Coordinates
chr11:100264728-100265290:+
Coord C1 exon
chr11:100264728-100264837
Coord A exon
chr11:100264838-100265117
Coord C2 exon
chr11:100265118-100265290
Length
280 bp
Sequences
Splice sites
5' ss Seq
CGGGTGGGT
5' ss Score
6.14
3' ss Seq
CAACCTTCCCCCCGTCCCAGGTG
3' ss Score
9.08
Exon sequences
Seq C1 exon
CCCAGGTCCCCGGCAGCCGGCGGCGGAAGGAGCAGAGCTACCGCAGCGTCATCTCGGACATCTTCGACGGCTCCGTCCTCAGCCTCGTGCAGTGTCTCACCTGTGACCGG
Seq A exon
GTGGGTGCTGCGCGGGGAGGGGAGCGATGCACAGGGCTTCCCACTCAGCTTGGGGCTGGGGCACTGGCTCTCCGCCCGGTACCCCCCGACCCCTGCATTTCTCTAGAGGCAGGCCCTGGTCCTGGGGCTCCCCGTGTCCCAGGACTGGGGAGCTGGCTCTCTGCCACACACCTGTCATCTGGCAGCTGGGGTTTGGGGTCCAGACCTGGGCTCATCTGGGCAGGGCCGAACCCTGGCAGATGGAAAGCCAGGCTGACCTTCAACCTTCCCCCCGTCCCAG
Seq C2 exon
GTGTCCACCACTGTGGAGACATTCCAGGACCTGTCACTGCCCATTCCTGGCAAGGAGGACCTGGCCAAACTCCACTCGGCCATCTACCAGAACGTGCCGGCCAAGCCGGGTGCCTGCGGGGACAGCTATGTGGCCCAGGGCTGGCTTGCCTTTATTGTGGAGTATATCCGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020311:ENSBTAT00000027070:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(6.7=100)
A:
NA
C2:
PF0044324=UCH=FE(10.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCGGAAGGAGCAGAGCTA
R:
GTCGGATATACTCCACAATAAAGGCA
Band lengths:
261-541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development