RnoINT0033543 @ rn6
Intron Retention
Gene
ENSRNOG00000022586 | Cdk9
Description
cyclin-dependent kinase 9 [Source:RGD Symbol;Acc:1359638]
Coordinates
chr3:11746452-11747113:-
Coord C1 exon
chr3:11746982-11747113
Coord A exon
chr3:11746534-11746981
Coord C2 exon
chr3:11746452-11746533
Length
448 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
CTCGGGTCTTTGTGTTGCAGGGA
3' ss Score
8.89
Exon sequences
Seq C1 exon
CGGCGGCGGCGGCGGCGGCGGCGGCGCGCTGGAGGCGGCCATGGCCAAGCAGTACGACTCAGTGGAATGCCCGTTTTGCGATGAGGTCACCAAGTACGAGAAACTTGCCAAGATCGGCCAAGGCACATTCGG
Seq A exon
GTAAGATTAGGCCGCGTGGGACCGGTAGCCCAGGACCTGCACTTTCCATGGCCTATATCGGGTCGTTCAGGGCCGGGGCCCGAGGTGGTACGGAAGCTTCTATTTCCTTGATTGTTGCCTGGTCTTGCTAGGCCGCGCCGCAGACGCTCCCGGCCTAACCGAGCGGACTGGCAGGGAGGAGCCTGAGGCCCGTGATGGGGGTTGGGTAGGGTTGCTGAGAGGAACTCAGTTTGTGAGCGGACACCTCTGGGGGGAGGAGTGGGAGCCGAGTAGGAGTAAGAGCAGGGGCTGGGAGAAGGACAGAAAACACGTGGTGTGGAATAACAGCTTACAGGAGTCCCGGGCCGCACCCCACCGTGTGTCTGGTCTCCCGCTGCTCCTCTTCGCGTGGGGGAGGGGCGGTCCCTGCGGAAATGCCTGATGGGTCCCTCGGGTCTTTGTGTTGCAG
Seq C2 exon
GGAAGTATTTAAAGCCAAGCACCGTCAGACCGGCCAGAAGGTGGCTCTGAAGAAAGTGTTGATGGAGAATGAGAAGGAGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022586:ENSRNOT00000032893:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(15.4=38.7)
A:
NA
C2:
PF0006920=Pkinase=FE(34.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]