BtaINT0158593 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020761 | USP33
Description
Bos taurus ubiquitin specific peptidase 33 (USP33), mRNA. [Source:RefSeq mRNA;Acc:NM_001101139]
Coordinates
chr3:67179509-67179892:+
Coord C1 exon
chr3:67179509-67179640
Coord A exon
chr3:67179641-67179838
Coord C2 exon
chr3:67179839-67179892
Length
198 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
CTGCGGTCTTCTTCGCACAGGGT
3' ss Score
7.83
Exon sequences
Seq C1 exon
GTGTTACCTCATTTGGAAAGCCTTGAGAAACAGGAAAACATTTCTAACAAAATGTCATCTTTTCGAAGTCATTGTCCACATTTGGATTCAGTTGGTGAAATAACTAAAGAAGATTTAATACAAAAATCTCAT
Seq A exon
GTAAGATAGAGGGCTTTTTTCCCTTCCTTTAAAAAACCATATTCATTTTTCTCTCAAACGTGGGTTTCTTTTTTTTAATAAATTACTACAATATCCTGTGTTCATGAATCCAGATTTTTATGTATGAACTTAATGAATGTCTGTGTTTGGCCGTGTTAATGGAATGGTGATGTTATCTCTGCGGTCTTCTTCGCACAG
Seq C2 exon
GGTTCTTGTCAGGATTGTAAAGTCAGAGGACCAAACCTTTGGGCATGCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020761:ENSBTAT00000027667:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214814=zf-UBP=PU(22.7=83.3)
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:
GTGTTACCTCATTTGGAAAGCCT
R:
CTCCAGGCATGCCCAAAGG
Band lengths:
186-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]