RnoINT0032676 @ rn6
Intron Retention
Gene
ENSRNOG00000027456 | Cdc42bpg
Description
CDC42 binding protein kinase gamma [Source:RGD Symbol;Acc:1307260]
Coordinates
chr1:221681538-221681885:+
Coord C1 exon
chr1:221681538-221681621
Coord A exon
chr1:221681622-221681763
Coord C2 exon
chr1:221681764-221681885
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
CCCCTCTCCACATTGTCAAGACC
3' ss Score
1.79
Exon sequences
Seq C1 exon
CTTGAAGGCCAGGTGAACACCCTGAGTCAGGAGGTGACACAGCTCCAGGGACAATGTAAACAAGACTCTTCTTCACAGGCCAAG
Seq A exon
GTATGGATGCTTCAGGCCCTTGGCAGGAGACACTCTCCCTTAGACTCTCCACCTTAGAGTCCTAGGAGCAGACCCTTGTCCCAGAGTGGGGTGGACCATGGCTTCACAAACACCTGCCTTTCCCCCTCTCCACATTGTCAAG
Seq C2 exon
ACCGTTCATGCAGCCCCTGAGACCAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAGGTGGCTGCTCTGAGGGAGCAGCTGGAGTGCGCCTGCAGCCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027456:ENSRNOT00000038016:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.464 A=NA C2=0.585
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGAAGGCCAGGTGAACAC
R:
CTCCAGCTGCTCCCTCAGAG
Band lengths:
189-331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]