RnoINT0133725 @ rn6
Intron Retention
Gene
ENSRNOG00000025892 | Set
Description
SET nuclear proto-oncogene [Source:RGD Symbol;Acc:1307467]
Coordinates
chr3:8655791-8656191:+
Coord C1 exon
chr3:8655791-8655871
Coord A exon
chr3:8655872-8656017
Coord C2 exon
chr3:8656018-8656191
Length
146 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TGCTTGCCCGCACTGTCCAGCCC
3' ss Score
4.21
Exon sequences
Seq C1 exon
CTCCTCCAGAAGTCCCCAGAGAAGCGTCTAGGGGCAGGAGAGCGGGACGCCGAGGAGATCAAGGTTCAGCCATTCTTCAGG
Seq A exon
GTAAGTAGCTAGAATGCAGCAGTCCTCACTGCCTGGTGAGGTGGGGAGGCTGGGTGGCCTCTCGGGTCTGCGGTTCCCACATTCCTGTCCTCCTCTACCTTGTTCAGACCACCAACTGGCAGGCCTTGCTTGCCCGCACTGTCCAG
Seq C2 exon
CCCCCCTTCGTGCCTACCCTCTGTGGCCCTGCAGACCTTCGTTACTTCGAGGGAGAGTTCACCAGCCTGCCTCCAACCCTGACCCCACCAGTCCCCCGCCGTTCCCTCTCTGCTCGCCAACAAGCTGCCTTCCGGGACTTTGACTTTGTGTCTAAGCGGTTCCTGGAGTCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025892:ENSRNOT00000050528:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.088
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.8=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=82.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTCCAGAAGTCCCCAGAG
R:
TCCAGGAACCGCTTAGACACA
Band lengths:
248-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]