RnoINT0032686 @ rn6
Intron Retention
Gene
ENSRNOG00000027456 | Cdc42bpg
Description
CDC42 binding protein kinase gamma [Source:RGD Symbol;Acc:1307260]
Coordinates
chr1:221683729-221684144:+
Coord C1 exon
chr1:221683729-221683788
Coord A exon
chr1:221683789-221684038
Coord C2 exon
chr1:221684039-221684144
Length
250 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CAGTGTGTGCTCCTTCACAGCCT
3' ss Score
6.79
Exon sequences
Seq C1 exon
AGTGTGTTCCCCAGGGTGCCTGCTGCCAACCCTACCCCTGCAGAGGGTCCTCCTGCTAAG
Seq A exon
GTCAGTGGGCAGAGGGGCAGGGAGTGGGATACCGACCTATTCAGCCCTTCCCCACAGTCCCTCAGGGACCCTGTGGGACCCTCTCAGGCCATGCTGAGGGTGGAGCTGGTGCTGGTTTTCTGACATGGCCTCCCAGGCACTCAGAGTTGACACTGCAGACTGACAGCCTCTTGGTCACCTGGCTCTTTGGAACGGTGCACAGGGTGCTGGGAGGCACTGAAGCATATTGACAGTGTGTGCTCCTTCACAG
Seq C2 exon
CCTGGTTCTCACACACTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCACTGCACCTCGCTGATGTTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027456:ENSRNOT00000038016:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(62.7=88.9)
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:
AGTGTGTTCCCCAGGGTGC
R:
GTCACAGCCCAGGCCCTG
Band lengths:
165-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]