DreINT0170305 @ danRer10
Intron Retention
Gene
ENSDARG00000037559 | uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009]
Coordinates
chr23:20733873-20734139:+
Coord C1 exon
chr23:20733873-20733961
Coord A exon
chr23:20733962-20734046
Coord C2 exon
chr23:20734047-20734139
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
AATTAACTTCTATTCCTCAGGAC
3' ss Score
6.87
Exon sequences
Seq C1 exon
ATGACTCGAGGCTCGAAGAGCTGAAGACACTGTTGCCTTCTTTAGAAGCATCTTCTCAATTCAAGCTCTGTCCTATTGAATTTGAAAAG
Seq A exon
GTACTACTTATAACTTGACCCCAATTTCCTGGGCAGTAGCCCTTTGGAATTGGAGTTAAAATATTAATTAACTTCTATTCCTCAG
Seq C2 exon
GACGATGACACAAACTTCCACATGGACTTCATTGTAGCGGCATCTAATCTGAGAGCAGAGAACTATGACATTCCTCCTGCAGACAGACACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037559:ENSDART00000054691:21
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:
PF0213416=UBACT=PU(4.3=10.0)
A:
NA
C2:
PF0213416=UBACT=FE(43.5=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:
AAGAGCTGAAGACACTGTTGCC
R:
CTTGTGTCTGTCTGCAGGAGG
Band lengths:
167-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]