RnoINT0033547 @ rn6
Intron Retention
Gene
ENSRNOG00000022586 | Cdk9
Description
cyclin-dependent kinase 9 [Source:RGD Symbol;Acc:1359638]
Coordinates
chr3:11743913-11744390:-
Coord C1 exon
chr3:11744219-11744390
Coord A exon
chr3:11744062-11744218
Coord C2 exon
chr3:11743913-11744061
Length
157 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
CGGTACCCTCTTCTTCTCAGGAG
3' ss Score
6.77
Exon sequences
Seq C1 exon
ATCCTGCACAGGGACATGAAGGCTGCCAACGTGCTCATTACCCGAGATGGGGTCCTAAAGCTGGCAGATTTTGGGCTGGCTCGCGCCTTCAGCCTAGCTAAGAATAGCCAGCCCAACCGATACACCAACCGTGTGGTGACATTGTGGTACCGACCTCCGGAGCTCCTGCTCG
Seq A exon
GTGAGGACTCCCGAGCGGGCAGAGGGGGGCAGGGGCCGGGTACTTACCTGGCCACAGCCCCCGTTGCCGGGGGCCTCTTTAGCCATCAGCCTTGGGACCTGGAGTCTCAGGAGGCCCTCGGGCTTAAGAGGCACTCCCGGTACCCTCTTCTTCTCAG
Seq C2 exon
GAGAGCGGGACTACGGCCCGCCCATTGACCTGTGGGGTGCTGGGTGCATCATGGCAGAGATGTGGACCCGCAGCCCCATCATGCAGGGCAACACAGAGCAGCACCAGCTTGCCCTCATCAGCCAGCTCTGTGGCTCCATCACTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022586:ENSRNOT00000032893:5
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(19.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(16.5=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:
CCAACGTGCTCATTACCCGAG
R:
CTCTGTGTTGCCCTGCATGAT
Band lengths:
245-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]