RnoINT0032687 @ rn6
Intron Retention
Gene
ENSRNOG00000027456 | Cdc42bpg
Description
CDC42 binding protein kinase gamma [Source:RGD Symbol;Acc:1307260]
Coordinates
chr1:221684039-221684548:+
Coord C1 exon
chr1:221684039-221684144
Coord A exon
chr1:221684145-221684414
Coord C2 exon
chr1:221684415-221684548
Length
270 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
AATTCTCCATCTCTCCACAGCCT
3' ss Score
9.43
Exon sequences
Seq C1 exon
CCTGGTTCTCACACACTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCACTGCACCTCGCTGATGTTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA
Seq A exon
GTAAGAACCTTTCTCCTTCAGGCTCTCCCCTCTCACCATAACCCCTGGGCATGACCCTAACACACCCTGGCTGTTCTCAACCTGACAGCACCCATGTCTCTTAGTCAATTCCCTATTTAGTTTCTCCTTTCTCTCTCAGTGGTGATGGGTGACCTGACCTGGTGATGGTGACCTGACCGGCAGGTCTCCTGAGTCCCCAAGGGATCTGTCTGGGAAGGCTCAGGCTGCCTGACCTGCTTCATCCCTCCACAATTCTCCATCTCTCCACAG
Seq C2 exon
CCTGTGGCTACTTCTGCCACTCAGCTTGTGCGACCCAAGCCCCACCCTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCCTGGGGGTGCACCCGGAAACAGGCACAGGCACTGCCTATGAGGGCTTCCTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027456:ENSRNOT00000038016:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.378
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PU(62.7=88.9)
A:
NA
C2:
PF0013017=C1_1=PD(35.3=40.0),PF0016924=PH=PU(5.9=15.6)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTTCTCACACACTGCGTC
R:
CGACAGGAAGCCCTCATAGG
Band lengths:
239-509
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]