DreINT0171000 @ danRer10
Intron Retention
Gene
ENSDARG00000042508 | ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-1473]
Coordinates
chr9:3956393-3956934:-
Coord C1 exon
chr9:3956798-3956934
Coord A exon
chr9:3956479-3956797
Coord C2 exon
chr9:3956393-3956478
Length
319 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTCCTTTCTCTCTCTTTCAGAAC
3' ss Score
13.92
Exon sequences
Seq C1 exon
ATCGAGTCAAACCTGAGTAAAGAGATGGAATCTGTTATAAAGGACATTAAAAACACCACACAGAAGAAATACATGGATTATGGGAAGAACCCTGGGTCACCTGACAATGACTTCCTCTTCATGTACTCCGTGGCCAG
Seq A exon
GTGAGTTAGAGCCATTTAATGTTTTCTTTGCATCTATATGTGACTTAAACAATAGATGGATCAGTGTTTTTTTAACTATTTTCAGTATTCTCAATACAGCATCAAGTGTTCATTGTTGTATTGTGAGTTTTAGGATTTCATTCGGGTGTCTCTCACATATAGTGATGGTTACCATTGACAATATTAATTACCAAAGAACCAATGTCATCTTAAAATCTTCTTTTTAGTTCTACTGTAAAATGTAGATACTTGGTTTTAAGTCGGCCTTGTCCACAGACTTTTACATATTCTATCTCTTTCTCCTTTCTCTCTCTTTCAG
Seq C2 exon
AACAAATCTGGAGCTTGAGTTGGTTCATCGTGGTGGGAATCTATGCAGTGGAGGGGCCAGTGCAGCTGCCAAACGCTCCTGTCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042508:ENSDART00000129091:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGAGTCAAACCTGAGTAAAGAGA
R:
TGAGACAGGAGCGTTTGGC
Band lengths:
222-541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]