HsaINT0036426 @ hg38
Intron Retention
Gene
ENSG00000013441 | CLK1
Description
CDC like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr2:200857718-200858089:-
Coord C1 exon
chr2:200857973-200858089
Coord A exon
chr2:200857885-200857972
Coord C2 exon
chr2:200857718-200857884
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:ENST00000321356:6
Average complexity
IR
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(2.8=12.5),PF0006920=Pkinase=FE(20.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=100)
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:
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