DreINT0170312 @ danRer10
Intron Retention
Gene
ENSDARG00000037559 | uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009]
Coordinates
chr23:20724106-20724496:+
Coord C1 exon
chr23:20724106-20724240
Coord A exon
chr23:20724241-20724389
Coord C2 exon
chr23:20724390-20724496
Length
149 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CTTTGTATGCTTTTGTCCAGGTT
3' ss Score
7.32
Exon sequences
Seq C1 exon
TTTTACCTGCGTGAGGAGGATCTTGGGAAGAACCGTGCTGATGTCAGTCAGCCTCGACTGGCAGAACTGAACAGTTATGTGCCTGTAACCTCCTACACTGGCACCCTCACCAATGAATACCTGACCAAATTTCAG
Seq A exon
GTACTGCTGCTATTGCTCCACTGGACTTTAACTTTGATCTCTTATAAGGATTACAAATTATTTTCTCTAAATGCATATTAAACTTTGCATTATAGCTGAACTGAAGTTTGAAGCTGTTAGCTAATAGGTCTTTGTATGCTTTTGTCCAG
Seq C2 exon
GTTGTTGTGCTCACCAACTCTAGTCTTGATGAACAGACACGTATCGGGGAATTTTGCCACAGTAATGGCATCAAGTTGATTGTGGCAGACACACGTGGACTGTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037559:ENSDART00000054691:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0089916=ThiF=FE(33.3=100)
A:
NA
C2:
PF0089916=ThiF=PD(26.6=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTGAGGAGGATCTTGGGAA
R:
CCAAACAGTCCACGTGTGTCT
Band lengths:
234-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]