RnoINT0133711 @ rn6
Intron Retention
Gene
ENSRNOG00000025892 | Set
Description
SET nuclear proto-oncogene [Source:RGD Symbol;Acc:1307467]
Coordinates
chr3:8646320-8648567:+
Coord C1 exon
chr3:8646320-8646503
Coord A exon
chr3:8646504-8648457
Coord C2 exon
chr3:8648458-8648567
Length
1954 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CGTAAGCCTTGGCACTGCAGGTG
3' ss Score
3.08
Exon sequences
Seq C1 exon
GCTCAGGCCCAGCTCCAGGAATCCTCCCAGAAGCTGGACCTCCTACGGCTGGCCCTGGAATTGTTACTGGAGAGGTTGCCTCCCACCCACTCTCTTCGCAGCAGGGTGACCCGAGAACTGCGGATGGCCATGCTTGGGAACCCCCAGCCTCTGGGGACACTTGTGAAACCCATTGCCCTGACAG
Seq A exon
GTAGGTAGCAAGGATTCCCTGTAACTTCAGAGGGCCCCTTTCCTTTTGGAGAGGATTCTGAAGCACTTTAGGAAAGAGTTCAGTCCTGCTCGTGTGACCTTGGTTAGCTCACATTCCCACTCTGATTCTTGGTTTATCCATCTGTAACATAGAAACGACAGATAGTAGTGGCCCAGCATGGTGGTGCATGCCTTTAATGCGTGCAGGGGGATGACTGTGAATTCTAGCCTTGTTTACAGAGTGAGTTCCAGGCCAGCCAGAGAGTAAACAAAGAATAGAAGTGCTCTCCTGACCTATAGGATAGCTCTGTAAATCCAATAACTTCTGACACTTCAGCCGTGAACACAGTCAGAGCTTGACCAACATGGATGGCATTTAAATGTGTGGCCGTAATTAGGGAATAAATCGACAATCATCCCACTCCCCTGGCGGCCTGGGGCCGGGCAGCTTGGGCTACCTGTAAGTATTTTGTTGCCCTGGCTGGTCTCGAACTCAGAGACATGCCTGCCTCTACCTCCAGGGTGCTGGGATTAAAGGCGTGTGCCACTAGCACCCAGCCAGAAAGTTCTTTCAGAAGCCAGAAAGATCTCCCTGAGATCTGTCTCCTTGTATCAGCAGCTGACTGGCGGTCAACAAATCATGTGAGCAGGCTAGACCCTGTTGCAGCTACTGCAGAACACAATAGACAGACTAACAGAGTCTGTCCTGTGTGGGCTTTACCTAACCTTGGATAATCAAGGAGGGCTCCTTAGAACGGGAGGTGGAGGGTGGGGAGGAGTGTGAGTTTGGCCTTGGAGTTCTCATGGGCGTGCTTATGTCAAGCCAGCAAGTAGGGGAAGACAAAAGGAGCCTCTTGTTTAAAGGCAAAGAATTTGAGACTAGAGATCTGCCATGGGAAGCAGTTGGTAAAGTTCTTGCTTACTGTGTATGGGGTCCTGCGTTCAGTCCCCAACACCATATATGGTAGCGCACACCTATAAGCCAGCCCCCTGGGGAGCAAGGCAGGAGGATCAGGAGTTCAAGGGCGTCTTTAGCTACGTAGTGAGTTTGAGGCTAACTTGGGCTAGCAAGATCCTGTCTTTAAAACAAAAGCAGAACCATATCCTAGTCTGTGGCTGAACCTCCATTTCCTAAGATGAGTATTTTGCCTGAATACCAGCCTTGGTATTTCTGAAAGGTCTCCAAGTATTATCTCCTGGTCCAGCCTACCAAAGTGGCATCCCCAGACCCAGTTTCTGTCTTCAGGAGCTCCTGGGTGCCTGCTACTTCCTCCTCTCGCCCTCTACCCTTTGAGATAAAACTTGCAGTGATCTTAGGCAAAACATGTTTTGTCCCCATTCGGGACTCTCCCTTGCTGATCAGGTGGGAAGAAATAGGGCAGGGAGCCAAACGGCTGCCCATGGCCACAGGTTTGTGCGCCTGCTGCCGCTGTGCACTTGAGGCCATGGTGCCCTCCAGGCCCCAAGCTCAAGGTAGCAGTGTCCCTCATCCTGTGGCTCTGCGAAGCTCTGGGGGAAGTCCTGTTCTTACATTATTGCTGGTTCTGTCACTGCTCAGGCACCAGGAAGGAGAGCTAGTATGGCTACTCGGGGTGCTGGGTAGTTACCAAGTGTGGTAGATAGGGTTTAGTTCAGCAACTTCTAACTCTAACCCTCCTAGAGGAGGTGGTGTCCCTCTGGGGATCCCATTGGTAGCGGCTCCTGACAGAGTGCTCTCCTGACTCCCAACCAGGGACACTGCAGGTTCGCCTCCTGGGCTGCAAAGAACTGCTGGCAACCGTGCCCGGACGGTCTCCCATGGCTGTCCTGGCAGCTAGCCCTTCTGAGGGCTGGCTCCGAACCAGGTCCAGGCAGCAGCGTGGTGGAGGCGAACTGGCCAGTGAGTAAGGAGGAGCTGTGAGAGGTGGTGGGGCCCCTGCTCTGACATGTCCTGAACGTAAGCCTTGGCACTGCAG
Seq C2 exon
GTGAAGTACTGGCTGTGTTGAAGGTTGACAATCGTGTTGTGGGCCAGACAGGATGGGGACTGGTGGCTGAGAAATCCTGGGACCAGGCTTTTAGCATCTCCTTGGACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025892:ENSRNOT00000050528:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0218511=HR1=PD(43.1=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCAGGCCCAGCTCCAG
R:
TCGGTCCAAGGAGATGCTAAA
Band lengths:
294-2248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]