RnoINT0161430 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9853230-9856057:+
Coord C1 exon
chr3:9853230-9853301
Coord A exon
chr3:9853302-9853770
Coord C2 exon
chr3:9853771-9856057
Length
469 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
GTGTCTCTCCTATCCCACAGGGG
3' ss Score
11.55
Exon sequences
Seq C1 exon
AGCCTCCAGGGCCCATCGACAACAGCAGGATTGCACAGGTCAAAGGCAGTGGTCATATCCAGCTAAAGCAGG
Seq A exon
GTGAGTCTCCCAGGACCCACTAGCCCAGCTGCCCTTTTTACCTTCAGACCGGTCACCACGTTACCACGAGAGTTCCTGTCCTTCCAGAAATCCCCGCTGTTTGTCTCAAAGTCTTTTATCCAAATCTAGGCCCAGAGGCCATGTAGGGGATTTCAAGTACTTGGCCTCTGGCAGGTCCTCCAGGTCCTGGACCACATCCTGCCTCTTCTATCCCTGACTTGCCTAGTTGACCCTTAGTCCTCTGGCTCTGGGAAACAGGAGACAGCAGCCAGAGATATGTCCTCTTGGGCTCTTAGCGGAACAACGTTTCTTTGTGCAGCAGCTTTTTGGTCAGGCCTGTGTCTACTCTCCATGCCCACTGGGGCACCATCCCCATCCTCTTCCCGGGGTTCCCTATCTAGAAGGTGTTTCCCCTGAGGGCTGGTACACAGTGTGGCCTCTGTGTAAGTGTGTCTCTCCTATCCCACAG
Seq C2 exon
GGGCTGACTACGGGCAGATTTCTGAGGAGACCTGGACCTATCTGAACAGTCTGTATGGGGGTGGCCCTGAGATTGCCATCCGGCAGAGTGTGGCCCAGCTCCCAGACCCAGAAAGCTTGCATGGAGAGCAGAAGATTGAGGCTGAAACCCGGGCTCTGTGACTTGGGCCATGCTGAGTTGGTGTGGCTGGCCCTACTCCCTCTCCAGACAGCCCTGCATCCCTCTGAAGGCTGTGTTCTGCTGAGTGCCCACTGTCCCTGAAGGCTGGTATCCGACATTCCCCAGAGGGTGTGTCTGCCCTGCAGCTGAGCTGCTGCGTGCCTGGTACCGGGGCTGAGAGCGGCTGGTCCGCCTGAGAGATGCTATGCTGGGAAATATATCCGCTCAGACTTGAGAACTCCGACTGTCATCGCTGTGTCCCCCAAACTTGCCCTCTTGCTAACTTGGGCCCAGCTTTTGTCCCAGGAGCCCCGTGCTGTTCCTTAGCCAATGCTGACCCCTGGGACGGGGGGCTAGGAGCGGCTGCCACCTTTTGGGTATTATCTGCTGTATACTTGGCCCAACACTTTAGGGACTTAGGGAGGTAGATGTCTGTGCACAGGGGCAGAATGGATGTGGGGCTCTGTGTAGGTCAGCAGCCCCTCATATCACAGTGGAGGCCCCGGCTGCCCATGTTTGTTCTGTTGACTACTCTTGTACTTGGAACAGAGAAAGGGCAAGTTTTGCTTTAGAGGGCAGAGGCCCTGCCCCCTTGTCCTGCTGAGTCCACTGGCAGACTGGCTGTCGTTTGCCCTGGGAAGTGGCTCCTAGGCCCCTAGGGGAGGGAAACAGATACCTCATGCACTGGTCCACTGATGCTTATTCAGCCTTCCGTGTGCTCTAGAGTGAGCCTGATCCCCTGCCCGCACCCAGCCTTGGCGTCTAGAGCTGACTCTGAGGGGATGTGAGCTGTGGCCACTCGCACAGGCATGTGTCTGGAGTGTCCTGCTAGGCTGCTGGAGAGGTGCTGGGACCTGCTGAGCCTAGAGAGTCTGCCCTGTGTTTGGAGTCCTGAAGAAGCCTGAACAGAGCTTCCAGGACAAGCTGTTCAAAGCTAAGACTGGGGTGGTGAGGGTGGATCCTGGGACCAAGAGGGCTGCAGTGGCCACCAGTCTCTTCAGAAGTGGAAGTGGACACTAGCCCAAAGACCTGGGCATTTAGTGTCCTATTGAGGTGGGTGCCATGTGGATCCTTAGTCGGCTGCTGCTGGGACATGCCCTGTTGGCTGCCATCTTTTGAAGTCTCTGTTGTGGAGCCCTTAGCTCATTGCACTACTGTGACACAGTCTGGGTTGTGTTCAGAATGTCACAATAAATACGTGTTCCTCTCCTGCCCCTAGCTTGTACTGTGACACCGTGGTGTTTGCCTTCACTGGTGATAAACACAGCCAGAGGTCCTGTGGAAGCTTCTGGGAGGAGCTGGAACACTTGAAATACCAACCGTGTCTTTCCTGGAACCCACCAACCCAGGGGGCCCAGCAGGGATGTATTGGTGGCCAGCACGTCCCATGTGCTGGCTGCTCAACTCCAGTCCCGTTTATGTTTGCTCCTTGGGGAGAAGGATTAGAGAGTATGTATTACTTTAAAAGCATTGAGTTAGGGGCTTGGGGTGTAGCTCAGTGGTCAAGCATATCATGGGACTCAGGTTCAATCAGTCCTGTGTGGGAGAGCACACTGTGGTCATTGACAACTCATCATACTGAAGGGTTTGGGAGCACAGAAGAGAAACCAAGGTTAAAACCTTCCCGAAGCCAGAAATAATGGCGTACAACTCTAGCCCAGCATTTGGAAGGCAGAGGGAGGAGGGTCAAGAGTTCAAGATCATCAGCTGCGTAGGGAGTTGGAGGCTACAGGACGTCTCAAAACAAAAGTCCACCAAACTAAAACCACCTGTAGGACTGGGACTGGGCCTCAGTTGACAGAGTCTATCTGATATGCATGAAACCTCAGGTTCAATCCCTGACACTTAGTCAGGGCTGGTGGAAGGAACCTGCTTGAAATAGAAGCTGCAGGGTGAGGCAGGAGGCCATCCTTGGTCACCTGATAAGAGGAGCCAGTGTGAGCCCCCATGTCCCGCCTCTGTTTACATGTTACATGTTACTACATGTGGGTGGCTTCTTAAGGTGAAATTCTGTCTGGAGTCATTTCAGTGGCTTGGCAATGGTGAGCAAGCTAAAAATAGATTCCCTGATTGGCCTCAACATGCATCTGTAGTTTTTCTTGAAATAAACACCCAGCTCTTAAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.320 A=NA C2=0.396
Domain overlap (PFAM):
C1:
PF063377=DUSP=FE(31.2=100)
A:
NA
C2:
PF063377=DUSP=PD(37.7=53.7)
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:
CCCATCGACAACAGCAGGATT
R:
GGGAATGTCGGATACCAGCCT
Band lengths:
343-812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]