RnoINT0133723 @ rn6
Intron Retention
Gene
ENSRNOG00000025892 | Set
Description
SET nuclear proto-oncogene [Source:RGD Symbol;Acc:1307467]
Coordinates
chr3:8655298-8655632:+
Coord C1 exon
chr3:8655298-8655435
Coord A exon
chr3:8655436-8655537
Coord C2 exon
chr3:8655538-8655632
Length
102 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TCTCCAGTGTCCGTTCCCAGGGG
3' ss Score
7.92
Exon sequences
Seq C1 exon
GAATTGGCTTTGGTGACCGGACCAGCACTTTCTGTGGTACCCCAGAGTTCCTGGCTCCTGAGGTTTTGACTCAGGAGGCTTACACTCGGGCTGTGGACTGGTGGGGGCTCGGTGTGCTGCTCTATGAGATGTTAGTGG
Seq A exon
GTGAGGTAAGTGCTAGGGCAGGGTTTCTGGGGCCTCTGGGGTGGGGACAGGGGGATGGCCTGCATAGCTTGCTGATCCCCAGTCTCCAGTGTCCGTTCCCAG
Seq C2 exon
GGGACACGGAAGACGAGGTGTTTGAATGCATCGTCAATGCTGATGTCCCATGTCCCCACTTCCTGTCAGCTCAAGGCCTCGAGCTCATTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025892:ENSRNOT00000050528:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(12.2=100)
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:
GAATTGGCTTTGGTGACCGGA
R:
CTGAATGAGCTCGAGGCCTTG
Band lengths:
230-332
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]