HsaINT0036426 @ hg19
Intron Retention
Gene
ENSG00000013441 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:2068]
Coordinates
chr2:201722441-201722812:-
Coord C1 exon
chr2:201722696-201722812
Coord A exon
chr2:201722608-201722695
Coord C2 exon
chr2:201722441-201722607
Length
88 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
TATTTTTCATGTGTTTGTAGCCG
3' ss Score
6.9
Exon sequences
Seq C1 exon
GGGAGGTAGACATGTAGCAGTAAAAATAGTTAAAAATGTGGATAGATACTGTGAAGCTGCTCGCTCAGAAATACAAGTTCTGGAACATCTGAATACAACAGACCCCAACAGTACTTT
Seq A exon
GTAAGTATCAGATTAGAACTTGGGAAGTGGTATCAGGTATATTTAAATTAGGAGCAACTATACTTAGCTATTTTTCATGTGTTTGTAG
Seq C2 exon
CCGCTGTGTCCAGATGTTGGAATGGTTTGAGCATCATGGTCACATTTGCATTGTTTTTGAACTATTGGGACTTAGTACTTACGACTTCATTAAAGAAAATGGTTTTCTACCATTTCGACTGGATCATATCAGAAAGATGGCATATCAGATATGCAAGTCTGTGAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000013441-CLK1:NM_001162407:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105774=UPF0560=PD(2.2=10.0),PF0006920=Pkinase=FE(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=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:
GGGAGGTAGACATGTAGCAGT
R:
TGCAAATGTGACCATGATGCTC
Band lengths:
167-255
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)