HsaINT0031738 @ hg19
Intron Retention
Gene
ENSG00000171219 | CDC42BPG
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:HGNC Symbol;Acc:29829]
Coordinates
chr11:64606950-64607740:-
Coord C1 exon
chr11:64607592-64607740
Coord A exon
chr11:64607044-64607591
Coord C2 exon
chr11:64606950-64607043
Length
548 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
CCCTGCCTGCCATCCCCCAGGGA
3' ss Score
9.33
Exon sequences
Seq C1 exon
TACCTTGTGATGGACTACTATGCTGGTGGGGACCTCCTGACGCTGCTGAGCCGCTTCGAGGACCGTCTCCCGCCCGAGCTGGCCCAGTTCTACCTGGCTGAGATGGTGCTGGCCATCCACTCGCTGCACCAGCTGGGTTATGTCCACAG
Seq A exon
GTGGGGCCCCAACCCCGCTGCCCTGCCCAACCCCGCTGCCCTGCCCAACCCCTGCCAGCTGTGCTGGGGACAGCTGATGTCAGCTGAGCACTCATCATGTGCCAGGCACTTCTCTGGGTGCCTCATCCGTGTGCTTCCTTGGAATCATACCAAAGAGCCCTCTGTGGCAGGGGCTGCTGCTGTGTCCGGCCTGCAGCTGAGGGGGTCAGAGCTTAGCACAGGGAAACACCTGTCTCAAGGTGACTCGGCTCTCGGGTGGCAAGCTGTGGTCTGCACTGGGGAAGTCTGACTCCTGCGTCCCCCATAGCACACTCTGCCACCTCCAAGGGTTGTCCCCACACATCCTTTCTACAATCTAGCCATCTTCCTCCTTCTGGCCTGTGGGATCATCTACACACACACACGTTGCTCATCACATGAGCACCTACACACAGGAATGTGTGTGAGCTGGTGCTGGCACACACCGTGCATGTGCACCTGGGCGTGTGCCTAAATGGCCACTTACACACAGGTCAAACGCCTCACTCTCCCTGCCTGCCATCCCCCAG
Seq C2 exon
GGATGTCAAGCCAGACAACGTCCTGCTGGATGTGAACGGGCACATTCGCCTGGCTGACTTCGGCTCCTGCCTGCGTCTCAACACCAACGGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171219-CDC42BPG:NM_017525:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.4=100)
A:
NA
C2:
PF0006920=Pkinase=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGTGATGGACTACTATGCTGG
R:
ATGCCGTTGGTGTTGAGACG
Band lengths:
240-788
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)