BtaINT0158590 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020761 | USP33
Description
Bos taurus ubiquitin specific peptidase 33 (USP33), mRNA. [Source:RefSeq mRNA;Acc:NM_001101139]
Coordinates
chr3:67201792-67202548:+
Coord C1 exon
chr3:67201792-67201972
Coord A exon
chr3:67201973-67202421
Coord C2 exon
chr3:67202422-67202548
Length
449 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGT
5' ss Score
8.01
3' ss Seq
TTTTCTCTGCCTAAATTCAGGTG
3' ss Score
9.21
Exon sequences
Seq C1 exon
ATTTTGTGCATCCATCTTAAAAGATTCAGACATGAACTGATGTTTTCCACCAAAATCAGTACCCATGTTTCATTTCCACTGGAAGGCCTGGATCTTCAACCATTTCTTGCTAAAGATAGTCCGGTGCAAATTGTTACCTATGATCTTCTGTCAGTCATTTGTCACCATGGAACTGCAAGTA
Seq A exon
GTAAGTATCCAAGTTTGACATATGATTTTACATTAAAAAAAGAAACATCTGAATTGATCTCTTAAACAAGGCCTGATTGAACAAAAAAAAAGTGTAAAAGTAGATTTTTATTAATTATTTTATTTTGGTTTTTAAAAACGTCAGAAATTTTAGGAATTTGAATAATTTTACTCTCATGTTTAAAATAGTAAAAATACATTTTGTGTTAAGATAAATAGTAAGGATTTTAACATGATTATTTTTACACTGGTTTTTTTAAGATTGCATTCTTTGTTACGATTTTCATTTCCTCCAGTAATGGTGGTAAGGGTACCTACTGGGAAAAATAGGGTAGTTCTTGCTATATCTCTGCTAGGTAGGAACTGAGGCTACAAAACTAGTTTTATCTTCCATTCTTGTGTTAATTTTGTATCACTGAAATAATTTAAATTTTCTCTGCCTAAATTCAG
Seq C2 exon
GTGGACACTATATTGCCTACTGCCGAAACAATTTAAATAATCTCTGGTATGAATTTGACGACCAGAGTGTCACTGAAGTTTCAGAGTCTACTGTACAAAATGCAGAAGCTTATGTTCTCTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020761:ENSBTAT00000027667:17
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(11.3=100)
A:
NA
C2:
PF0044324=UCH=PD(7.7=95.3)
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:
TGTGCATCCATCTTAAAAGATTCAGA
R:
GTAGAAGAGAACATAAGCTTCTGCA
Band lengths:
302-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]