BtaINT0158585 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020761 | USP33
Description
Bos taurus ubiquitin specific peptidase 33 (USP33), mRNA. [Source:RefSeq mRNA;Acc:NM_001101139]
Coordinates
chr3:67196948-67198355:+
Coord C1 exon
chr3:67196948-67197063
Coord A exon
chr3:67197064-67198182
Coord C2 exon
chr3:67198183-67198355
Length
1119 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
AAAACACAAAACAATTTTAGGTG
3' ss Score
3.86
Exon sequences
Seq C1 exon
TTCAATCTGCATTATCTCCAAAGAGAAAAAAACAGCACAAGAAATACCGAAGTGTTATTTCAGACATATTTGATGGAACAATCATTAGTTCAGTTCAGTGTCTGACTTGTGACAGG
Seq A exon
GTGAGTATGTGAGAATTATAATACACAGGAAATTTCTTTCAAATGCTTTAAAAAAAACTGACTATGGTATGAGAAGTTTTAATTCCTTCTCTTTGCTATTGATGATTATACTTGTATTTCAGGTGTTTGCATAAGTATAAATTGATTCTAAGACTAGAACTTGTTTTTTGGAAGTAATAGCAGCATACTTTTTTAAGGATGGGTCTTGACTTGTCATTGAACAGGCATGCATTAGCAGGAAGAATTAACTCAGTTCTTCATCTCTGGTCACAAATAAAGGAGATATGTTGCTCAGCAACCAGAATTTGAAACACATACATATTCTCCCAAGGCTGATGAAATTAGCAGGAAACAGTTGTTACTGACTTGTACAAGGCTATGAATGTATCATCTCACTTGGTTATATGGTTTGTAAATATTTTCTCATGTTAAGATTGGATTCAGATAATAAAAGTAGTATCAGGTTTATACAGAAGATACGTAAATTAATATCATCATGAGATTTTTAATAATACCTCTAAATTCCTGAACTTCATAGAGGTTTTAAGAATGGTTTTACTTCGGTATAGTGATGAATATAATTAAAATAAATGTAAAATGACATATCTCAAAAAAGAAATAACCCAAAGAAAGTTTTCTGTTATTGTGTTAGAATTAAGTCAAGTCTAAGGGTTTTCAATAGTCTATTTTAATGTATCAGTTATTTAAATAGAAATATCCTGAAATGTTTTCAGCTGTTTAGGTTTTGCATCTTGTTTTTTAAACTACATTTAATAACTATCACTAGAGGTCATTTCCAAAAATAAATGCAGTAGTGATAAACAGTTTGAACCTCAAGCTACAGTGGCTGGGTGTGAGGTACTTCTGTTTACCACTGTGTTCTCAGCTAATGGGGATGTTGGTAGTTATGGTTTATGTGAAGATAAAATTTAGAACAGTTCCCGGTGCAAAGCAGTTTTGCTTTAGTTGTTACTTTTGCTTTATTACTATAAAAAACAGTTTGGTGTTTGGGTTTTTTCCTTATTATAATTTGCTTGGATCTTTGCCGTCTAAAATCTGTCCTCAGGTGTTTGTGCTGGATTATTTTCATCCCATTCTTAAAACACAAAACAATTTTAG
Seq C2 exon
GTGTCTGTAACCCTCGAGACCTTTCAAGATCTGTCCTTGCCAATTCCTGGCAAGGAAGACCTTGCTAAACTGCATTCGTCAAGTCATCCAACATCTATAGTCAAAGCAGGATCATGTGGCGAAGCATATGCTCCACAAGGGTGGATAGCTTTTTTCATGGAGTATGTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020761:ENSBTAT00000027667:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(7.2=100)
A:
NA
C2:
PF0044324=UCH=FE(10.8=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:
TTCAATCTGCATTATCTCCAAAGAG
R:
CACCCTTGTGGAGCATATGCT
Band lengths:
259-1378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]