GgaINT0124260 @ galGal4
Intron Retention
Gene
ENSGALG00000004142 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr17:5725471-5728577:+
Coord C1 exon
chr17:5725471-5725542
Coord A exon
chr17:5725543-5726481
Coord C2 exon
chr17:5726482-5728577
Length
939 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ATCGCTGTTGTCCTTTTCAGGTA
3' ss Score
12.36
Exon sequences
Seq C1 exon
AACCTCCAGGACCAATTGACAACAGCAAGATTGCACTGACAAAAGCGGGTGGCCACATGCATGTTAAACAAG
Seq A exon
GTAAGGCATTTGCTGCTGTCTTGTAGTGTTCCTGAAAGGTTAGGGAGAATATTCCACTGCATCTGTCTGTCTGTCTGTCTGTAACAAAGCAGTAACAGAGCAAGATGGTGTTGCAGAGGAAGACTGCTCTGCACATCCCTGTGCTGACTGCCTTGAGTGCCATCTCAGTTCTCCATCGGCAGCTCCCACAATGACTGACTTGCTGACATGACGTAGTGGAGTAAACTCTGCACTCCTCCATCTCCTGTTCTTGCTGTTCCCAAAGCTTTCTATCATTTCCCTTTGCCCACTATTGTAGTGTTTCACTTGTCTTTACTCAACATCTGCTGTGGTCCAGCTAGTGAAATAAGGCTGCTTGGGCTGTCCTCACTGCACTGCCGGGCAGATGAAGATTGCATATGTATCTTGGTTATCTCTCAAAGCAAATATTTCCGCTCTCCTCTTCTGTAACCTTCATAGCAAAGACCTTTGCTTTCCCTGTGTTTTGCTGTGGCCACTTTAAATTGTTCCTCCTGGGACAGTTTGAAGGAACGCTTTCTGCCTCTCTGAGGCAGTAGAACCCAGCTGCCTGCCTTCGGTGTGTAGCTCGGGTCTGTCAGAGCTCATTTGCTGCTGTGTGTAACCCCGGTGGTGTGGCTCAGTTTGAGGACGGGAAGAAGCGACTCTGCAGCAGAATCCCACAGCTGTGGGCTGAAGTGCCATGGAGCCTCAGTGGCTTCCAGCAGCAGGTGGCACTGCTGAGGGCCGGTGGGAGCGCTGCTGCTAAGGCTGCATGGCACGGGGCTGTGCTTCGTTTGCACAGTGCAGAGATGGGCACCAGGGGTGCTCTGCTCTTCTGGTGCAGGGGGGGGTGGTGGGGGACGATGTCCTCCGTGATGTAATGCAGCAGCCCCTCCAGCTGATGGCTGCGTGTCTGCTTATCGCTGTTGTCCTTTTCAG
Seq C2 exon
GTACTGATTATGGGCAGATTTCCGAGGAGACGTGGATTTATTTAAGCACACTGTACGGAGGGGGCCCAGAGATTGCTGTCAGACCGAATGTGGCCCAGGTGCAAGAACTGGGTGACCTGCATGGGGAGCAGAAGATTGAAGCAGAGACCCGGGCTGTGTGATCTGTGCAGGATGGGGCAGGGAAGGTACGGCACAACTATGTGTGCAGATGGATGGGGAATCCTGAGGAGTCAAACCTATTCCTTTGTGTGGTACTCAAAGGCGTGTGCAGCTCCCACCACCGCTCTGGGGAAGGCAGGTGTCCTTGGCCATCCTTTCATGTGGTTCTGGATATAGGGGTGGTACTATGAAAGACTGGGAGAAATCCATTTCTCTGTAATTCATTTTTGTAGCCTCAGTGGGGAAAAAACTGGTGGTGAGATTGCAGATGGACTTCGCTAGCCTGTGTTTTGACCTGAGCCTCTCCCTTTTCTTTGCTTACAAGAAATCAGCACTCTCAGCTTGTCCTCAGTAAACCGATTCTCTGCTCCTTTGCAGGTTTTGCTTTTGGCACTTTCCTTTTTTAACCCTGTGTAAAGATAATGAGATGTTATTTATGTTTCCAGTAAGCAGCGTTGCAACTAGAGAAACCTGTTTATTTGAAGCTAACTGAAGCCACAAGGCCTCCTGGTAGTTTTGTGCTGATGGTGCACAGTTGTCACAACTTCCTAGTTTTGCTCCTTATCTAATTCTTGCAACTTCGGTTGCAACTGAATAATTTTGAAATAGTCTGTTTCTTTCTCCCTTAAGCCCTAAAGTTCCACCTTCACCATCCTGACAGGATTTTCTGCTCCTCGTATCTGATTTCATGTGTTCAGCATGTTTTCAGAGAACAAAGCTGGAGGATGAGTTCTCCTTCCCTCAGTACTGTTTCCCCTTAAGCTCCTGGCAGCTTGCTAGATATGGGATGCAGCCTTACAGGTTAGACTCAAAGCTGTTTAATGGGCAGACTTCTTTGGAGCAGGACACGGGACTTTGTTCCTAAGCCCAGAACCCCTTCTCAGAATGACCCTGCTGTCAGCACAGGTCTGTCCCTGCATCTGTCATGAGAAACAGAGGATGAGTGGGGGCTGAGGAGGGTGCCCATATCTTTGCACAGAGCCTGCTCAGGTGGGCAGCTGTGGGCAGGGCCCTCGTGGAGCACTGGAGAAGGTGCCTGGCTGAGCAGGTCCAGACTGCTGGAGTGGCTTCAGGAATGAGCTGCTTTCTGCAAACAGGCCTCCACCTGTGTGCTGAGGTCATTTAGCTTCTCAGTACAGATGTCCTTTGTGTAGGCAGTGGCTCATTTAATGAATAGAAATAACGTGCTCCCTCATCTACTGCTGCTGCTGTAGCTGTGGACTACAATAACAGGCAGCAGAGAGAGGCAGGAAGACAAAAGAGTCTGAACACGAGTTATCCCAGCAGGGCCGTTCTTAAAAAGTTCTTCTTTCACCTAAGACAAGGCCATAGCAAAAGGGCATGCACCTGTGTGTTTCAGTGAGCTTCAATGGAATCTCAGCAAGGCAAAGCTGGCGAGACAGAGGTGACCTCTCTTGGGCTGAGGACCAAAACTGCATTCATCACAGTGCTGGAACCTGCCTGGTTCCACAGCATCGTGCCTGGGCTGGGGGCCCATGGAAAAGAGAAAGGAAGGGAGGGCTGTGCTTTCACTCACAGGTAGAGTGTGGAGAAGAGTGCAGGAGAGTTTGAAAAGGAAAAAACGTGGCCTTCAGATTTTTTTAGACCAAAAGATTGCTGCAAACAGCAAATCCTTCTTTTAATAAATCCTTCTGTAAATGGTTCACCATGTTATTTTCACTATCTTGTTTACTGGATGCCTGTATATGCCCAAGGGGAGGTCAAAGAATGAGCCGCTGTTGGGATTTCTCGTTGTTCTCAGCTTTGTTCGCCACTGCAGCCTTCTTGGAAGCTGCTGCAGAGCCTGTAGGGCTGCATGTCTGTGTTGTCTGTGCCGTTCAGAGGATGCTGTACAGACTGTAATAATACTCCTGTGCTTAAGTGTTACACTTTGTGCTGAAAACGTGTTACAATAAATATATGTGCATCCAACACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.360 A=NA C2=0.170
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTGGCCACATGCATGTTAA
R:
GAAAGGATGGCCAAGGACACC
Band lengths:
344-1283
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]