RnoINT0161436 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9837598-9839351:+
Coord C1 exon
chr3:9837598-9837667
Coord A exon
chr3:9837668-9839237
Coord C2 exon
chr3:9839238-9839351
Length
1570 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
GCTCTCCATCCCCAACCTAGCCC
3' ss Score
4.83
Exon sequences
Seq C1 exon
GCCTCACAGGCATGAAGAACCTGGGGAACTCCTGTTACATGAATGCTGCCCTGCAGGCCTTGTCCAATTG
Seq A exon
GTAGGTTGTCATCTCCTGAGGGATGGGCAGGAGCTGTCCCTGGCAAAACCTAGCAGCAGCCTCCCTCCTGGGTGGTACACATTGGCCACAGACATTCTATAAGACACACCTCAAACCCAAAGGCAGGCGTGCTGGGTGACTGCCGCCCCTCTGAACCTCACGTCAGCACTCAGATGGAGGAGGAAGCATGATAGGCAGGGGGTAGCTCACTGGTGGGGAGTTTGCAGAGCATGCGCAGTGCCCTGGGTTTCACCCGCAGCACCATGTACATAAGACCTATCTGCAAGAAGGTAAATTCAGTGTAGCCCAGTCACGTGGGGGAATGGAGGCCGATAGTTCCTGAAGTGAGTGGTGCAGAATCAGGCTGGTAGAAAGAGCGTGCCAGGTGGGGTGTAGGCCTGTTCAGTGGGGGCCTCTACACAGTTGTGATTGAGAGTGTATGTGTTGTTTCATACGTGTACACACACACACACACACACACACACACACACACAACTGACACAGCATCGATAAAGTGTACCCAGCAGTCCTCCCCTTCTTCCTATGTAAGCTGTATGTTAGCACACAGGACACACAGGAAGGAGGGAAAAGGGAACAGATATGAATACCTAGAAACATCTGGAAGGACAGCCCCCAAAGGTTCACAATGGCTGTCTCATGGTAATATGGTCAGTTGGTATTTGCATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAATATGTGGTTTCTTGCAGTGTGATAACTTCTAAAAATATGCAGAGTTGAGGGGAGTTGAGGAGGTGACCTCCTGCCTGACAAGTCCTGCAGTGTGGGCACTGTAGGGAGCAGGGCAGCTCCACCCTGTTCATTCACAGGGTCCCAGCCTATGGCAGAAGCTTCCGTCTGACTCAGGAGAGAGGAATTTTTGTTTCCTATAGCTGGCAAGGCCTTCCTGTTTCTCAGTTCTGGAAGCCCACTCTAGCAGTTTCTTACCTGACCCTTCTCTCTCTGTAGGTAGCCATGCGTTCGTGAGGTCTTTTCCTCCATGCACATGTCTGGTGTTACCCTGTGTGTCCAAAATTCCTCTGTAACAACACCAGCCTTTCATCTGATACCTACTTAAGGGTCCTGTCTCTTAGAACTTTAGTGTGAATTTGGGGGCTTCTAATAATCTGCAGGGAGTTCTGGGTGAGGTGGCCCTATCTTCTATGGCTGTTTCCACCTTCTTTTGCTCACTTTGCTCCTTAAAAAAAGATATCCTGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCCCCCCCCCCCCAAAAAAAAGATATCCTATTTATTTACTTTAGTGTATATGTGCGGTATGGGTGGAGTCAGGGACAACCTTACGAGCTGGCTGTTTCCTTCCACCATTCAGGCCCAGGGATCAAACTTGAGTCGTCAGGCTCAGTGGCAGGCACCTTTCCTTGCTGAGTCATCTCTAGCTTCTCGTAAATAACACCATGTTCCTCCCATTTCTTTTCTGTCCTGGCTCTCCATCCCCAACCTAG
Seq C2 exon
CCCCCCACTCACCCAGTTCTTCCTGGAGTGTGGTGGCCTGGTGCGAACAGACAAGAAGCCAGCCTTGTGCAAAAGTTACCAGAAGTTGATCTCTGAGGTCTGGCACAAGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=PU(82.6=95.0)
A:
NA
C2:
PF0044324=UCH=FE(13.0=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:
CCTCACAGGCATGAAGAACCT
R:
CGTTTCTTGTGCCAGACCTCA
Band lengths:
183-1753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]