HsaINT0032667 @ hg38
Intron Retention
Gene
ENSG00000136807 | CDK9
Description
cyclin dependent kinase 9 [Source:HGNC Symbol;Acc:HGNC:1780]
Coordinates
chr9:127786049-127786782:+
Coord C1 exon
chr9:127786049-127786240
Coord A exon
chr9:127786241-127786700
Coord C2 exon
chr9:127786701-127786782
Length
460 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
GTCTCCCTTTCCGCCTGCAGGGA
3' ss Score
11.53
Exon sequences
Seq C1 exon
GCGCGGCCGCGGAGGGGCCTGGAGTGCGGCGGCGGCGGGACCCGGAGCAGGAGCGGCGGCAGCAGCGACTGGGGGCGGCGGCGGCGCGTTGGAGGCGGCCATGGCAAAGCAGTACGACTCGGTGGAGTGCCCTTTTTGTGATGAAGTTTCCAAATACGAGAAGCTCGCCAAGATCGGCCAAGGCACCTTCGG
Seq A exon
GTAAGGCTGGGCCCCTCGGGGCCGGGAGCCCTGGGCCTGCACCCCTAGGGCCGACGTCGGGATGCCCGGGCCCCCCCCGAGTTGGTAGAGAAGTCGTCTGTCCCCGGGCTTGCCTGCTGGTCTCTAGGCCGCGCCGCACCCCGCCCCGGCCTGACGGAGCCGGCTGGTGGGGAGGAGCCTGAGGCCCGTGGTGGGGGCGGGGAGGGGCTGCAGAGAGGCGCCCGTGAGGGGAGCGGGATCTCTCCAAGGGACGCCCAAGTGAGGAGAAGGGACTGAGGGAAGGAAGCAGAGGCTCCGAACGAGACAGGCTGCCGGGTGGCGGGGTAGCCGCGTGCCCTGGGTACCTAGCCCAGCCCCGCCCGGGAATCTCTTTGCTGCTGCCCCTCCTCCTGTAGTGGGGGAGGGGCGGGCCCTGCGGAAATGGCCTGATGAGTTCTCGGGTCTCCCTTTCCGCCTGCAG
Seq C2 exon
GGAGGTGTTCAAGGCCAGGCACCGCAAGACCGGCCAGAAGGTGGCTCTGAAGAAGGTGCTGATGGAAAACGAGAAGGAGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136807:ENST00000373264:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.083
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(14.3=38.7)
A:
NA
C2:
PF0006920=Pkinase=FE(32.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCGGCCATGGCAAAG
R:
CCCCTCCTTCTCGTTTTCCAT
Band lengths:
183-643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development