DreINT0172694 @ danRer10
Intron Retention
Gene
ENSDARG00000016163 | usp33
Description
ubiquitin specific peptidase 33 [Source:ZFIN;Acc:ZDB-GENE-040426-2323]
Coordinates
chr2:8947995-8949963:+
Coord C1 exon
chr2:8947995-8948167
Coord A exon
chr2:8948168-8949892
Coord C2 exon
chr2:8949893-8949963
Length
1725 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTA
5' ss Score
6.46
3' ss Seq
TTTTGTTCATTGATTTTTAGCTG
3' ss Score
7.37
Exon sequences
Seq C1 exon
GTTTCGGTGACTTTGGAGAACTTCCAGGACATCTCTCTGCCCATCCCAGGGAAAGAGGACCTTGCCAAGCTGCACTCGTCCTCCCACCAGACGGCTCTGGTCAAGGCTGGCTCTTGTGGTGAAGCATACGCCCCTCAAGGCTGGATTGCTTTTGTCATGGAATATATCAAGAG
Seq A exon
GTATTAAACTCACTGTTCTTTTATGCGGAAGACTTTTGCATTTAATACTTCAAGAACAGTACTTTTTACAGTATACTGTGGCTGCTCAATTATGGAAAACATTATTGTCATGATTATTTTGGTCAATGATGTAATCACAGTTATTTTAAATAATTAGTGGGTTATCATTGGGCTATTCACTGTAAAAAAAAAAAACTTTTTTTGATGCTGTCATAAAACAAATTTATTAAATTAAATTAAAATATGGGTAAATTGAACAAAAAAATTGTTTAAGTAGTTTGAACAAGCAGCAAAAAAAATTTTTTTCAGTGTAGGATCAAAACTTTTTTTGAGATTTTTTTTTATATGTATCTATTACAATATACCCTCGACGGCCAGTTTATTAGGTACACCTTACTAGTAACGGGTTGGACCCCCTTTGGCTTCAGAACTGCCTTAATCCTTCGTGGCATAGATTTAACAAGGTACTGGAAATATTCCTCAGAGGTTTTGGTCCATATTGACATGATAGCATCACACAGTTGCTGCAGATTTGTCGGCTGCACATTCATGATGCGATTCTCCTGTTTCACCACATCCCAAAGGTGCTCTATTGGATTGAGATCTGGTGACTGTGAAGGCCGTTTGAGTACAGTGAACTCATTGTCAAGCTCAAGAAACCAGTCTGACATGATTCGCAGTTTACGACATATCGCGTTTTAAAGAAGCCATCAGAAGATGGCTACACTGTGGTCATAAAGGGATGGACATGGTCAATAACAGGCACGTGCACACATAGGGCTCAACCTGTGCAGTGCACATGCCCTTTTTAGTCTTGGATAGAAAGTGCCCTTCCAAAATCTCGTGCGACATACAACAACCATTCCACGTTCAAAGTCACTTAAATCACCTTACTTCCTCATTCTGATGTTCAGTTTGAACTGCAGCAGATCGTTTTGACCATGTTTACATGCCTAAATATATTGAGTTCATGCCATGTGATTGGCTGATTAGAAATTTGCTTTAACGAGCAGCTATACCTAATAAGGTGGCTGGTGAGTGTATATCAATTAACACAGAACATCAGCACAGAACAACACAAGGTCTCTTATGTGCTTTTAAAAACACAAATTATTAAAAATATTTAAACAAACAAATGCACATCCCATGCTGCAATTGAGGTAATTTCACTGATTTCCAGGTAAACAACTGCAGCGTGCAAAAAAGGGGATGGATATGACACAGTAATCATTTTATTATCAATTAATAATTTTTTATTATCTTTTTATTTTGTTACTTTTAACATTAAATGTTATCCTTTTATTATAAAATTGCTTTTTTGACATACTTCAGTAAGCAAAGAAGCATTCTTCTTTTAAATTAATAAATCACAAATAAAGTGAATGAGTTTTTCCTTAAAACAAGCAAAGTAATCTGGCAATGGGGTTAGAAAATAGTCTCGTTTTCGCTTTGAAATAAGATTGTGTTTTACCCCAATGGCAAATTATTTCCTTGTTTTAGGGAAAAACTCACTTAATTTTGACTTATAATTTCCGAAAACAAAACTTTTTTTTTTTTTGCTTGTCTTAAATGCTTTTTGATTTAAGACTTTTTGATATTTGGACTAGAAAGAAGACAAAAGTAAGAATCTTTTGCTGTGGACTAAAAAAAACAAGATTTACAAATAATGTTACTTTCAAATAAAACATTTTTCTGTTCTCTCTATTTTTGTTCATTGATTTTTAG
Seq C2 exon
CTGGTTCTGGGGCCCTGTGGTGACACTGCAGGATTGTCTGGCAGCCTTTTTTGCCAGGGATGAACTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016163:ENSDART00000018114:13
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(11.1=100)
A:
NA
C2:
PF0044324=UCH=FE(4.7=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:
TCGGTGACTTTGGAGAACTTCC
R:
CTTTTAGTTCATCCCTGGCAAAA
Band lengths:
241-1966
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]