RnoINT0032675 @ rn6
Intron Retention
Gene
ENSRNOG00000027456 | Cdc42bpg
Description
CDC42 binding protein kinase gamma [Source:RGD Symbol;Acc:1307260]
Coordinates
chr1:221681155-221681621:+
Coord C1 exon
chr1:221681155-221681334
Coord A exon
chr1:221681335-221681537
Coord C2 exon
chr1:221681538-221681621
Length
203 bp
Sequences
Splice sites
5' ss Seq
GAGGTTGGT
5' ss Score
6.36
3' ss Seq
TGTCCCTTGCCCCATCACAGCTT
3' ss Score
7.09
Exon sequences
Seq C1 exon
GAGCTGGCTGAAGCTCAGGCAGCATTGCAAGTGCGGGATGCTGAACTGTGCCAAGCCCAGAACCGACAGGAAGAATTCCTACAGAGGCTGTGGGAAGCCCAAGAGAGAGAGGCAGCTGCAGCCAGTCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG
Seq A exon
GTTGGTGATGATAGTGGGAAGGGGAGCAGCAAGTGTTGGGAATCCATGTCTCTAGCACCCGCTGTGGCTGGTTACATTGGACAGGGCCTGGCGGTGAGACAGGCACTTGGGTTTGCTGCTGGATGAGTCTGAGTCTGTCAGAATGATATGAAGAGGGATAAATGGACAGGGTTGGCGTTACCTTGTCCCTTGCCCCATCACAG
Seq C2 exon
CTTGAAGGCCAGGTGAACACCCTGAGTCAGGAGGTGACACAGCTCCAGGGACAATGTAAACAAGACTCTTCTTCACAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027456:ENSRNOT00000038016:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.464
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
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCATTGCAAGTGCGGGATG
R:
CTTGGCCTGTGAAGAAGAGTCT
Band lengths:
244-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]