HsaINT0031712 @ hg19
Intron Retention
Gene
ENSG00000171219 | CDC42BPG
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:HGNC Symbol;Acc:29829]
Coordinates
chr11:64602972-64603323:-
Coord C1 exon
chr11:64603234-64603323
Coord A exon
chr11:64603094-64603233
Coord C2 exon
chr11:64602972-64603093
Length
140 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTC
5' ss Score
5.64
3' ss Seq
ACCCCCTCCATGTCCCCAAGACC
3' ss Score
4.48
Exon sequences
Seq C1 exon
CTGGAGGCCCAGGTGTCCTCCCTGAGCCGGCAGGTGACGCAGCTGCAGGGACAGTGGGAGCAACGCCTTGAGGAGTCGTCCCAGGCCAAG
Seq A exon
GTAGTCAAGTCCTCCCCCTTGGCAAGAGGTGCTTCCCCACCAGCCTGACCCCACTCAGAGCCTCAGGGCCAGGCCTGTGTCCCAGGTGGGTGGGCCATGGCATCTTGGGTCTCTGCCCTGACCCCCTCCATGTCCCCAAG
Seq C2 exon
ACCATCCACACAGCCTCTGAGACCAACGGGATGGGACCCCCTGAGGGTGGGCCTCAGGAGGCCCAACTGAGGAAGGAGGTGGCCGCCCTGCGAGAGCAGCTGGAGCAGGCCCACAGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171219-CDC42BPG:NM_017525:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.900 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF041569=IncA=FE(22.8=100)
A:
NA
C2:
PF041569=IncA=PD(1.6=4.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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:
GAGGCCCAGGTGTCCTCC
R:
CCTGCTCCAGCTGCTCTCG
Band lengths:
196-336
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)