RnoINT0033545 @ rn6
Intron Retention
Gene
ENSRNOG00000022586 | Cdk9
Description
cyclin-dependent kinase 9 [Source:RGD Symbol;Acc:1359638]
Coordinates
chr3:11744502-11745137:-
Coord C1 exon
chr3:11745047-11745137
Coord A exon
chr3:11744669-11745046
Coord C2 exon
chr3:11744502-11744668
Length
378 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGA
5' ss Score
9.78
3' ss Seq
CTCTCCCTATTCTGCACCAGCTT
3' ss Score
5.14
Exon sequences
Seq C1 exon
TTCCCCATCACAGCCTTGCGGGAAATCAAGATTCTACAGCTCCTAAAGCACGAGAATGTGGTCAACCTGATTGAGATTTGTCGAACCAAAG
Seq A exon
GTACGATGCTCGTTCTCGGGATAAAATGAACCTTAAACCTTTGCTTGCACTCCTGAGGTAAATGTGCTTAATGCCTCCTCCTGACTTGACTTGATCACACAGCTTCCCGATCTGTTTTGTTTTGAGACAGGGTTGCCCTGTGTAGCCCTGGCTGTCCTTGACCTTGCTCCATAGACCAGGCTAGCCTCACACTGCCTCTGCCTCCCTAGTGCTAGGGCTAAAGGCATGCACCACCAGTGACTGACCACCAGCTTCTCCGGGCTTTCTCCGATGGAGTTGGGTGTTTGTGGATTGGAGGGCTGGGAGTTGGCTGTGGAAAATGAGGTGGGTGCAGGTTTTTTATTTTCCCTCCCACCCTCTCTCCCTATTCTGCACCAG
Seq C2 exon
CTTCACCCTATAACCGCTGCAAAGGCAGCATCTATCTGGTGTTCGACTTCTGTGAGCATGACCTCGCTGGGCTGCTGAGCAATGTCTTAGTGAAGTTCACGTTGTCTGAGATCAAGAGAGTAATGCAGATGCTGCTGAATGGCCTCTACTACATCCACAGGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022586:ENSRNOT00000032893:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(10.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.5=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:
TTCCCCATCACAGCCTTGC
R:
TTCCTGTGGATGTAGTAGAGGCC
Band lengths:
254-632
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]