BtaINT0158395 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020311 | USP20
Description
Bos taurus ubiquitin specific peptidase 20 (USP20), mRNA. [Source:RefSeq mRNA;Acc:NM_001105333]
Coordinates
chr11:100278921-100279699:+
Coord C1 exon
chr11:100278921-100278992
Coord A exon
chr11:100278993-100279522
Coord C2 exon
chr11:100279523-100279699
Length
530 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CAGCCCCTCGGACCCTGCAGGAG
3' ss Score
5.17
Exon sequences
Seq C1 exon
AGCCCCCGGGGCCCATTGACAACAGCAGGATCGCACAGGTCAAAGGAAGCGGCCACATCCAGCTGAAGCCGG
Seq A exon
GTGAGGCTCAGCCCTGCCCTGCCCCCTCCCAGCCGGCCAGGCTCCCCTCCTGGCTCCTGGGAGCCCCCTCTTGCCACCTTCTGGCTTCCAGGTCCTCCCAGGAGCCCCCTTGCCCCCTGAGTCAGGCTGTGACATCCATCCAAGTCCAGGCCTGGGCCTTGAGCAGAGCGATCGAGGTGCTTAGCCTCTGCGTGGGTGCCCCAGCCCCTCTGTTCCCTACCCACACCCTCTCCCCACTCTGCCACCTCATCTGCCTGTCCTTTTTGCATGACCCCCACCCCAGGAAATGAGGGGCTGCAGCCACAGATGTGCCCTCTGGGGGTCCTCAGGGGATGGGCTTGCCCCTGGAGAACCCCAAGATTCCCATTTACAGCTTGGCACAGAAGCCCATGATTGTCCTCCCTGCCCCCCCGCCACCTCCTTGGGGCCTGGCGCTCCCAGAGCCCCCCTCTCAGAGCCCCCATACTGCCAAGGTGGTGGCTCCAGCAAAGGCAAGCCCAGCCTGAGCGGCAGCCCCTCGGACCCTGCAG
Seq C2 exon
GAGCTGACTATGGGCAGATCTCCGAGGAGACCTGGGTGTACCTGAACAACCTCTATGGCGGCGGCCCCGAGATTGCCATCCGCCAGAGCGTGGCTCAGCTCCCGGACCCGGAGAGCTTGCACGGTGAACAGAAGATTGAAGCCGAGACCCGGGCCTTGTGACTCGGTGGGCCAGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020311:ENSBTAT00000027070:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.360 A=NA C2=0.358
Domain overlap (PFAM):
C1:
PF063377=DUSP=FE(31.2=100)
A:
NA
C2:
PF063377=DUSP=PD(37.7=53.7)
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:
GCCCATTGACAACAGCAGGAT
R:
AGACTGGCCCACCGAGTC
Band lengths:
239-769
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development