HsaINT0031716 @ hg19
Intron Retention
Gene
ENSG00000171219 | CDC42BPG
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:HGNC Symbol;Acc:29829]
Coordinates
chr11:64601901-64602435:-
Coord C1 exon
chr11:64602321-64602435
Coord A exon
chr11:64602050-64602320
Coord C2 exon
chr11:64601901-64602049
Length
271 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
GGGTGCTCCGTGGCCACCAGGAC
3' ss Score
4.77
Exon sequences
Seq C1 exon
GGTGAATGATGAGAAGGTCTCAAGAGGCTACCTGCAGGCCCTGGCCACCAAGATGGCAGAGGAGCTGGAGTCCTTGAGGAACGTAGGCACCCAGACGCTCCCTGCCCGGCCACTG
Seq A exon
GTGAGCCCCAGAGATGCCCCTGGGGGCTGGCTTGGGCAAGTCACTGACCTTCCGTGAGCTCAGCATCCCTGCTACTGAAGGTCACTACTGGAGGTGGGGACACCAAGCTCATGAGAGATAGTGATTTCCCTGAGCTCACAGTGGGTCATTGGCTGAGCTGGAGCTTTGAGCCTGGCTGGGTGGCATGGGTAGCAGGATGCTCTGGTAGCAGGGGGTCCCTGAGGCAGCCAGGCCTAGAAAGCATCTTATACGGGTGCTCCGTGGCCACCAG
Seq C2 exon
GACCACCAGTGGAAGGCGCGGCGACTGCAGAAGATGGAGGCCTCGGCCAGGCTGGAGCTGCAGTCAGCGCTGGAGGCCGAGATCCGCGCCAAGCAGGGCCTGCAGGAGCGGCTGACACAGGTGCAGGAGGCCCAGCTGCAGGCTGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171219-CDC42BPG:NM_017525:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.538 A=NA C2=0.540
Domain overlap (PFAM):
C1:
PF070286=DUF1319=PU(5.1=12.8)
A:
NA
C2:
PF070286=DUF1319=FE(50.0=100),PF088265=DMPK_coil=PU(53.4=62.0)
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:
AGAAGGTCTCAAGAGGCTACCT
R:
CTGCAGCTGGGCCTCCTG
Band lengths:
245-516
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)