DreINT0022007 @ danRer10
Intron Retention
Gene
ENSDARG00000080019 | UBA6
Description
ubiquitin-like modifier activating enzyme 6 [Source:HGNC Symbol;Acc:HGNC:25581]
Coordinates
chr1:19162508-19162805:+
Coord C1 exon
chr1:19162508-19162590
Coord A exon
chr1:19162591-19162710
Coord C2 exon
chr1:19162711-19162805
Length
120 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAC
5' ss Score
4.29
3' ss Seq
GTGTGTGTGTGTGTGTTTAGTCG
3' ss Score
7.04
Exon sequences
Seq C1 exon
GATCTTAAAGAGGAACATCTGGACACCCCCTCTCCCCTTCCCACTATGGCCGACTCCATGGATATAGATGACTCTCTGTACAG
Seq A exon
GTGCACGTTTAAGACAGAACTGAGACAGGCTTAGCTTTTTGTTATGTACAGAATTCGATTCATTAAATTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTAG
Seq C2 exon
TCGGCAGCGGTATGTGCTGGGGGACAGTGCTATGCACCAGATGGCCCAGTCCACAGTGTTTGTCAGTGGAATGGGAGCACTTGGAGTGGAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000080019:ENSDART00000111454:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0089916=ThiF=PU(12.4=51.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTTAAAGAGGAACATCTGGACAC
R:
CTATTTCCACTCCAAGTGCTCCC
Band lengths:
178-298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]