HsaINT0031723 @ hg19
Intron Retention
Gene
ENSG00000171219 | CDC42BPG
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:HGNC Symbol;Acc:29829]
Coordinates
chr11:64600298-64600808:-
Coord C1 exon
chr11:64600703-64600808
Coord A exon
chr11:64600432-64600702
Coord C2 exon
chr11:64600298-64600431
Length
271 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
CTTCTCCACTTTCCCCACAGCCT
3' ss Score
10.86
Exon sequences
Seq C1 exon
CCCGGCTCACACACGCTGCGCCCCCGGAGCTTCCCATCCCCGACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGTTGTGATG
Seq A exon
GTGAGAGTCCCCACCCACTATGCTCCAGCCACGGTCCCAGGTGTGTGGCCCTGGCATACCCAGGCTGTTTCTCCCATCCCAGGGTCACTGGCACCTGCTGGTCAAATTTCCTCCTGCTCAGCTTTGTTCCTTTTCTCACTTGATGAGGAATTGGGGACAGTTCGGGTGCCACCGTGGCTTCAGGGAAGCTGGCTCTGGACATGCCCCCGTCCTGGTTTGGGGCTGTCCCCTCCCAGCCTCACCTCATCCACCTTCTCCACTTTCCCCACAG
Seq C2 exon
CCTGCGGCTACTTTTGTCACACAACCTGTGCCCCACAGGCCCCACCCTGCCCCGTGCCCCCTGACCTCCTCCGCACAGCCCTGGGAGTACACCCCGAAACAGGCACAGGCACTGCCTATGAGGGCTTTCTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171219-CDC42BPG:NM_017525:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.356
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
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:
CCCCCGGAGCTTCCCATC
R:
CGACAGAAAGCCCTCATAGG
Band lengths:
220-491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)