RnoINT0133717 @ rn6
Intron Retention
Gene
ENSRNOG00000025892 | Set
Description
SET nuclear proto-oncogene [Source:RGD Symbol;Acc:1307467]
Coordinates
chr3:8652455-8652760:+
Coord C1 exon
chr3:8652455-8652518
Coord A exon
chr3:8652519-8652668
Coord C2 exon
chr3:8652669-8652760
Length
150 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGACTTTTTCTGGTCCCTAGGTC
3' ss Score
11.43
Exon sequences
Seq C1 exon
GAACCCCCCCCAACTTCAGGACTTCCGATGTTTGGCTGTGCTGGGCCGGGGACACTTTGGGAAG
Seq A exon
GTAGGTAGTTGAGGATGATGTAGTGGGGTTAGTAGATGGGCAAGCATCGTGTCAGCACATTGACTGGAGATGTGGGGATTGGGGGGAGCACTGTGTGGGCAGGTAGGCTTCTGTTCTTCTCACCTGGATCTGACTTTTTCTGGTCCCTAG
Seq C2 exon
GTCCTCCTGGTCCAGTACAAAGGAACGGGAAAATACTACGCTATCAAGGCACTCAAGAAACAGGAAGTGCTAGGCCGGGATGAGATTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025892:ENSRNOT00000050528:19
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:
PF0006920=Pkinase=PU(5.1=59.1)
A:
NA
C2:
PF0006920=Pkinase=FE(11.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAACTTCAGGACTTCCGA
R:
TGTCAATCTCATCCCGGCCTA
Band lengths:
148-298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]