HsaINT0031734 @ hg19
Intron Retention
Gene
ENSG00000171219 | CDC42BPG
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:HGNC Symbol;Acc:29829]
Coordinates
chr11:64594143-64594639:-
Coord C1 exon
chr11:64594522-64594639
Coord A exon
chr11:64594267-64594521
Coord C2 exon
chr11:64594143-64594266
Length
255 bp
Sequences
Splice sites
5' ss Seq
CCGGTTAGT
5' ss Score
6.1
3' ss Seq
TCCGCACTGTCACCCAACAGGCT
3' ss Score
7.59
Exon sequences
Seq C1 exon
GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGCTCATCTCGCCGCCTACCAACTTCAACCACCTAGTACACGTGGGCCCTGCCAACGGGCGGCCCGGCGCCAGGGACAAGTCCCCG
Seq A exon
GTTAGTCCTCTGGAGCCAATCACAAGCCACTTTGGTGAGGCTGAGCCAATAACCGGCCTCTGTGGTGAGCTCTAGCCAATCACGGGCCGCTGTAATTACTCCTAAGGCCTGGGACTCACACTTCTGCTACCTGGGACTTAAGTAAAACCAGGCTGGGGGCCCAGTGGCGTTCATTTGTCCTGGTCTGTTGTGCCTTGGGCCTCTTGTCCTCCTTGTGCCTGCTAGTCCCAGCCCCTCCGCACTGTCACCCAACAG
Seq C2 exon
GCTCCCGAAGAGAAGGGCCGAGTTGCCCGCGGCTCCGGCCCACAGCGGCCCCACAGCTTCTCCGAGGCGTTGCGGCGCCCAGCCTCCATGGGCAGCGAAGGCCTCGGTGGAGACGCAGACCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171219-CDC42BPG:NM_017525:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.800 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0078623=PBD=WD(100=55.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGAAGGACCCTTTTGTGC
R:
TGGGGTCTGCGTCTCCAC
Band lengths:
237-492
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)