RnoINT0161437 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9839238-9840694:+
Coord C1 exon
chr3:9839238-9839351
Coord A exon
chr3:9839352-9840615
Coord C2 exon
chr3:9840616-9840694
Length
1264 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CAGGTTTGCTCTCCCCACAGGCC
3' ss Score
10.59
Exon sequences
Seq C1 exon
CCCCCCACTCACCCAGTTCTTCCTGGAGTGTGGTGGCCTGGTGCGAACAGACAAGAAGCCAGCCTTGTGCAAAAGTTACCAGAAGTTGATCTCTGAGGTCTGGCACAAGAAACG
Seq A exon
GTGAGTGTCTGAATTTGACCTGGGATAGATGTGTTGGGCAAGACCGCCTGTCCTCTCTGTGGAGCACTTCCTCTGGGTTCCTCCCCAGCGAAGCCGTACTGCATGTCTAGTTGTACCTACTTCCTTTTGTGAGGGGAGACAGAGAACCATTCCCAGCTGCAGAGCCTCTGACAGCGGAGCCAGGGTCTGAGCTGACGCAAGCCTGGGCGGCAGCTATTCTGACAAATGTCTCTCCTGAGGCCTGGAGACCATCTTGCCAGTGTCGGGTCTCGGCTGAGGCTGTAGTTGGGGGTGGGTACTTGTACAGGGGTGTTGGGTGCCTGCCAAGCCAGGGTTGTGGCAGAGTGAAGTGAATTTAAAGATGAGGATTGGGTTGGGGATTTAGCTCAGTGGTAGAGTGCTTGCTCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAAAAAAAAAAAAAAAAAAAAGATGAGGATTGTGGCTGGGTCTCCTCTGGGCCAATGGAAGGTAAAGCAATTGCTTACACACACTCCTTACTTCCCTCTCTGTTTCTGCTTCAGTCCTGACCTGGCTTTTTTAGCCTTTCCCTGAAGGCTCCTTCACTTTCTGACCTCCCTCACTGGGCCTGCCTGCTTTCTGAGTCCCTGACTCAGGACCAGCTCTCCCCTCTTCCTCCCGCCCCTGCGCAAAGGTCTACAGTACTCCTGCCCAGTCCCTTTTCTCCCAGACTGTAACAAAACGGACCTCAGGCTCCCATAAGCAAGCAAACCAAAAGAGCAGATGTAAAAACAAGAAAGAGTGGAGTTGGGGGTGCATGAACATGAGCCACAGGCACGCACTAGGTTGGCAGTGGGCTAAGGGACTGATGGTGCGCTGTTCCCTGGGTCCCTGCGTGCATCTTAGCCTGCTTTTCTAGGGAGGGACACTGCTATGGTCCCGTGCAGCACTTGTGGACGGGGACATCTTGGTGATAGTATTTCATTGTACTTTTGTGAAGTTTTAGGTTTTCAGCAATAAATACATATTGTTCCTAATGAGGAACATTTTACAGTGAGATTAAGTAAGCACACTACCCCCTGGGACCTCTGTTCGCTCAGGCAGCACTGGTGTCTTGCTTCTGGATGTGGATGCTAGGGACTTGTCTCCTGCCTAGTGGGGCCAGTGGAGTGGTGGGAACAGCCTCTGTGGGGTCTGGGCTGCCTGCCCTCTTGCCTTTCCAAACGGTGAAGCTTAAGGCTGGCCACCTAGATAGCAGGTTTGCTCTCCCCACAG
Seq C2 exon
GCCAAGCTATGTGGTCCCCACCAGCCTATCCCATGGGATCAAGTTGGTCAACCCGATGTTCCGAGGCTATGCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:9
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(13.0=100)
A:
NA
C2:
PF0044324=UCH=FE(4.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCACTCACCCAGTTCTTCCT
R:
CATAGCCTCGGAACATCGGGT
Band lengths:
182-1446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]