DreINT0170306 @ danRer10
Intron Retention
Gene
ENSDARG00000037559 | uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009]
Coordinates
chr23:20734047-20734414:+
Coord C1 exon
chr23:20734047-20734139
Coord A exon
chr23:20734140-20734222
Coord C2 exon
chr23:20734223-20734414
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGC
5' ss Score
5.61
3' ss Seq
CTTTCTCTTTCATGTTTCAGAGC
3' ss Score
11.39
Exon sequences
Seq C1 exon
GACGATGACACAAACTTCCACATGGACTTCATTGTAGCGGCATCTAATCTGAGAGCAGAGAACTATGACATTCCTCCTGCAGACAGACACAAG
Seq A exon
GTTAGCAGGCCAGCGATTTCAAAGCTGTCCTGTGAGCTACGTATCATCTTTAAAGATTCTCACCTTTCTCTTTCATGTTTCAG
Seq C2 exon
AGCAAACTCATTGCTGGAAAAATCATTCCAGCCATTGCCACAACAACAGCCGCTGTTGTAGGTCTGGTGTGTCTGGAGTTGCTGAAGATCGTTCAGGGGCACAAGAAGCTCGAGTCCTACAAAAATGGCTTCATGAACCTTGCTCTGCCTTTCTTTGCCTTCTCCGAGCCTATAGCTGCCCCCAAGCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037559:ENSDART00000054691:22
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=FE(43.5=100)
A:
NA
C2:
PF0213416=UBACT=PD(47.8=51.6),PF093585=UBA_e1_C=PU(18.2=37.5)
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:
GCGGCATCTAATCTGAGAGCA
R:
GAGCTTCTTGTGCCCCTGAAC
Band lengths:
168-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]