RnoINT0032684 @ rn6
Intron Retention
Gene
ENSRNOG00000027456 | Cdc42bpg
Description
CDC42 binding protein kinase gamma [Source:RGD Symbol;Acc:1307260]
Coordinates
chr1:221683408-221683648:+
Coord C1 exon
chr1:221683408-221683460
Coord A exon
chr1:221683461-221683549
Coord C2 exon
chr1:221683550-221683648
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CCATCTTCACTCATCCCCAGAAG
3' ss Score
7.34
Exon sequences
Seq C1 exon
ATGCCAAGCCCTGTACCTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG
Seq A exon
GTAAGATCCAGGTAGAGGGACTAGTTAGGGAGGAGTCCTGGTGAGAAACATGACGGCCCTGACTTTCTTCCATCTTCACTCATCCCCAG
Seq C2 exon
AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGTCCCCCCGGTCTGGAGCAGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTTTGCGCATGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027456:ENSRNOT00000038016:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF070286=DUF1319=PD(10.3=66.7)
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:
ATGCCAAGCCCTGTACCTCC
R:
CTCTGGCCTCAGCTCTGCTTC
Band lengths:
128-217
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]