RnoINT0032667 @ rn6
Intron Retention
Gene
ENSRNOG00000009675 | Cdc42bpb
Description
CDC42 binding protein kinase beta [Source:RGD Symbol;Acc:621753]
Coordinates
chr6:135779910-135780476:-
Coord C1 exon
chr6:135780383-135780476
Coord A exon
chr6:135780111-135780382
Coord C2 exon
chr6:135779910-135780110
Length
272 bp
Sequences
Splice sites
5' ss Seq
ACTGTAGGT
5' ss Score
4.15
3' ss Seq
TCACCCCTTCTCCCTCCAAGGTT
3' ss Score
8.02
Exon sequences
Seq C1 exon
AGACATTAAACCCGACAACGTCCTTCTGGATGTCAACGGTCACATCCGCCTGGCTGACTTTGGCTCGTGCTTGAAGATGAACGATGACGGCACT
Seq A exon
GTAGGTATTTTCTGTTGAAGACCACCCTATGCTTTTGAATTTAGCTTGTGGTTAAAGGGGAGCTGAGTATTCAGTTTGAGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCCTGTCAAATCACCTGGCCTTGATCCCTGGTCACTCACCGCCATTACTCCACGACTGTTTTGTTTTCTGTTGCTGCTGCTCTCTAAGGATCATGGTTGGAAATATTAGTGATGTTCTTGGTTCCCTCATCACCCCTTCTCCCTCCAAG
Seq C2 exon
GTTCAGTCTTCCGTGGCTGTGGGCACACCTGACTACATCTCACCAGAGATCCTGCAGGCCATGGAGGATGGCATGGGCAAATACGGGCCCGAGTGTGACTGGTGGTCCCTGGGCGTCTGCATGTATGAGATGCTGTATGGAGAAACGCCATTTTATGCAGAGTCTCTGGTGGAGACATATGGAAAGATCATGAACCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009675:ENSRNOT00000039059:6
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(11.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(24.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTAAACCCGACAACGTCCT
R:
CTCGTGGTTCATGATCTTTCCA
Band lengths:
293-565
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]