DreINT0170307 @ danRer10
Intron Retention
Gene
ENSDARG00000037559 | uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009]
Coordinates
chr23:20734223-20734608:+
Coord C1 exon
chr23:20734223-20734414
Coord A exon
chr23:20734415-20734506
Coord C2 exon
chr23:20734507-20734608
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ACATTCTTGTCTGCGAATAGTAC
3' ss Score
5.1
Exon sequences
Seq C1 exon
AGCAAACTCATTGCTGGAAAAATCATTCCAGCCATTGCCACAACAACAGCCGCTGTTGTAGGTCTGGTGTGTCTGGAGTTGCTGAAGATCGTTCAGGGGCACAAGAAGCTCGAGTCCTACAAAAATGGCTTCATGAACCTTGCTCTGCCTTTCTTTGCCTTCTCCGAGCCTATAGCTGCCCCCAAGCACAAG
Seq A exon
GTAAGCTGCAGCAGCAGTATTCTTCATTACTGCAGTGGTTCTGTTGTTACTTTGAATTACTCAGCTGTTTTGACATTCTTGTCTGCGAATAG
Seq C2 exon
TACTACGAGATTGATTGGACACTTTGGGACCGTTTTGAGGTGAAGGGCATTCAGCCTAATGGAGAGGAAATGACACTCCGGCAGTTCCTGGATTATTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037559:ENSDART00000054691:23
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=PD(47.8=51.6),PF093585=UBA_e1_C=PU(18.2=37.5)
A:
NA
C2:
PF093585=UBA_e1_C=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGGTGTGTCTGGAGTTGC
R:
CCTTCACCTCAAAACGGTCCC
Band lengths:
177-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]