DreINT0170314 @ danRer10
Intron Retention
Gene
ENSDARG00000037559 | uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009]
Coordinates
chr23:20724583-20725003:+
Coord C1 exon
chr23:20724583-20724673
Coord A exon
chr23:20724674-20724870
Coord C2 exon
chr23:20724871-20725003
Length
197 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
TGTAAAATAAATAAATAAAGGAC
3' ss Score
-1.05
Exon sequences
Seq C1 exon
GCAACTGTTCTGTGATTTTGGGGAGGAAATGATAGTATTCGACACAAACGGAGAACAGCCATTGAGCGCCATGATCTCAATGATCACAAAA
Seq A exon
GTAAGAGCCTGTGTGATTCTACCATTGAGCCTTTTTAATGCAGGATCAAGTAGTTATAGTTATTTGTTAACTTTCTGGCTGATTGAACTTTTTGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTATGTGTAAAATAAATAAATAAAG
Seq C2 exon
GACAGCGCTGGTGTGGTTACGTGTCTGGATGAAGCACGGCACGGATTTGAGAGCGGAGACTATGTCACTTTCACAGAAGTGCAGGGCATGACGGAACTTAATGGCTGTGATCCAGTAGAGATCAAGACACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037559:ENSDART00000054691:7
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:
PF0089916=ThiF=PD(4.5=19.4)
A:
NA
C2:
NO
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:
GCAACTGTTCTGTGATTTTGGGG
R:
CCAGTGTCTTGATCTCTACTGGA
Band lengths:
224-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]