BtaINT0158597 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020761 | USP33
Description
Bos taurus ubiquitin specific peptidase 33 (USP33), mRNA. [Source:RefSeq mRNA;Acc:NM_001101139]
Coordinates
chr3:67213700-67215355:+
Coord C1 exon
chr3:67213700-67213768
Coord A exon
chr3:67213769-67214198
Coord C2 exon
chr3:67214199-67215355
Length
430 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TCTATGTACTTGATTTTTAGGAG
3' ss Score
7.34
Exon sequences
Seq C1 exon
ATCCTCCAGGTCCTATTGATAACACTAAAATTGCAGTCACCAAATGTGGCAATGTGATACTCAGGCAAG
Seq A exon
GTAAGTTTGACTAATACTATTAAGCCTTCGCTTGTTAGTGATTTTTCACACTCTGTAGTTCAGGAAACTCTTAGTACTCAATGCTCTATGGTGATCTAAATTGGAAGGAAATCCAAAAAAGAGGGGCTATATGTGTACATATAGCTGATTCACTTTGCTGTACAGTAGAAACTAATACAACATTGTAAAGCAACTGTACACCAATAAAAATTAATTAAAAAGAATATGTGGGGAAAAAATCTCTAACTTTTTAAGGCAGACCATAAAGTTGCAGCCTATAACTATATGGGCTGATGGCCTGAAGATTCATGTTCTGAAACTTCTCAGTTATTCCTAGAGTATTCATAGTGGGGGTACATTATGAAAGCTTTTGCAATATGAATATGAAAGTTTGTAAATATTGTTTTTTCTCTATGTACTTGATTTTTAG
Seq C2 exon
GAGCAGATTCTGGTCAGATTTCTGAAGAAACATGGAATTTTCTACAGTCTATATATGGTGGAGGGCCCGAAGTTATCTTGCGGCCTCCAGTTGTTCATGTTGATCCTGATGCAGTACAAGCAGAAGAAAAAATTGAAGTAGAAACTCGGTCTTTGTAATCTTGAGGCTATATAGAGTTCTGATGAGAAATCATTTTCACTTCCCCTAGCATATTCCCATGCAAAAACATTCCTAAAAGCATGTTTATTTTCTCGATTTTTAATGTTTTAGCTTTTATTCCTTCTTACTGGGCATTATGGAAGAATGTGTTAAATGTATAATATTCTACAGGTTGGCATATTTAATGCTAGATAACTTATAAAGTCTTTCAGTGTAATATTTTTGAAAGAGAGGGGATAATTGTGATCATTTGGCAATCAGGTTATCTTTGATCTTTATACTACATGTAAATCCATAGTCCTTTGTAGCTTTGTAAATACTTTTGCTTTGAAAACTTTTTCATTACCCTAAACCACCATAACTCTGACCAATCTTTTCAGTTCTCTAAAAACCTAATTTAATTGTATAGTTTTGACATGGCTTCATATTATAAAGAACCTATTTTAAATTGAGAGTCACAGTCAGAAAGATGTTAATTTCCTAAAGCTCAGGAAACTGTTAGGGTGTCACTTCTTTTGCACTGCAGCATATGAATTAGCATATTAATATTTACAAAATGTCTTTTTGAATGTAGCAATGATGTATTTAGTCTGAGTGGAATTTGTGTCAGCAGATATTAATAATTTATTGCCTCTTATACTGTAAAATGTTAAATTTCAGTTCCTATAACCCTGAATAGTGTTCATTAATAACAGTAAAAAAGAAGAAACTTAGGGTTAGTTTTAGGGCACTTTTATTTTGAGAGCATGAAGTGTAGAATGTGTTGATAAAGCTGAAGCCTCTTGTGAAATGATTTTTTAAATGAAATGCATAAAGTCTTTTTGAATAACATAGTATGCACTGCTATTTGCTTGATTATGTGATGTCAAAAGTTTAATTATATTCCAAGTACAAAAACAAATGGGATTACTTTGAGGATGTTCAATAGCATTAACAGTGGCTTTGTTTTGGTCTGGGGCAGATGCCACCAGCTAAAACAGTGTTATTAAAATCAGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020761:ENSBTAT00000027667:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.058
Domain overlap (PFAM):
C1:
PF063377=DUSP=FE(30.7=100)
A:
NA
C2:
PF063377=DUSP=PD(37.3=52.8)
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:
ACACTAAAATTGCAGTCACCAAA
R:
ACACATTCTTCCATAATGCCCAGT
Band lengths:
357-787
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]