HsaINT0036425 @ hg19
Intron Retention
Gene
ENSG00000013441 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:2068]
Coordinates
chr2:201722696-201724469:-
Coord C1 exon
chr2:201724403-201724469
Coord A exon
chr2:201722813-201724402
Coord C2 exon
chr2:201722696-201722812
Length
1590 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
TGCATGCATCTTTCTAACAGGGG
3' ss Score
8.1
Exon sequences
Seq C1 exon
ATGAAATTGTTGATACTTTAGGTGAAGGAGCTTTTGGAAAAGTTGTGGAGTGCATCGATCATAAAGC
Seq A exon
GTAAGTTTCCCATGTTGGGATTACTTTTAGGGAAGTTGGCAATACAGGTAATTGATTTAGCTTTAGAAAGTGGTCTGACCATGAGTTAGATACATATCTTTATACCCTTTTTTACTTGGATGTAAGACACTTCCAGTTAAGAGGTACTTGCCCCTTCATATTTTTTAAACAGCTACTAATAGTATGTATAATTTCTAATTTTAGGCTGAGAACACACTTTATATTGTTTTGAAAGTATTGTTTTGTTGTTCAACTGGACACTGTTGTTAGGCCATATTTTTTTCCCCCACCATATTAGTGGTTCTCAGCCTTGGTTTTATGTTAAGATCCTCCTCGAGAGGTTTGCCTACCCCAGACCTTTTCAGGGTAGTTACCTAGGAATCTATATTTTTAGGAAGTGCTGTAATTCATTCTGATAACATAGCTGGAGATAACTTGGTGTCCCAAGTTTAATTATGTATGTTTATCAAACTACTGATTGAAATTTTTTTTTTTCTCGAGACAGAGTCTCGCTCTGTCACCCAGGGTGGAGTGCAGTGGCGCAATCTCAGCTCACTGCACCCTCTGCCTCCCGGGTTCAGGTGATTGTTCTGCCTCAGCCTCCTGAGTAGCTGGAACTACAGACACGCGCCACCATGCCCAGCTATTGTTTGTATTAGTATTGTATTGTTTGTATTAGTAGAGACTATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGACCTGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCGCTTGGCTCCAGCCATGAAATTTCTTAAGATAGTATAGAATTTTTTCCGTTACTCTTTTTTTTTAGTTCCCTGTTTGTTGTTGTTGTTGTTGTTGTTGTTATTGTTCTTCCTCTTCCTGAATGGCAAAGCATTTTTGAGGGGGCTTCCTACTATTGATTGGTAAGGACATGAGAGCTAGAGCTCTTTTTTTGTTTATTTTTCTTTTCCCTGAGATGGAGTCTTGGTCTGTCGCCCAGGCTGGAGTGCAGTGGTGCAATCTTGGCTCACTGCAACCTCCACCTTCCGAGTTCAAGTAATTCTCCTGCCTCAGCCTCCCAGGAAGCTGGGATTACAGGCACACACCACCGTGCCTGGCTAATTTTCATATTTTTGGTAGAAATAGGGTTTCACCATGTTGGTCAGGCTGGTCTCGAACTTCTGACCTCAAGTGATTTACTACCCTCGGCCTCCCAAAGTGCTGGGATTATAGGCGTGAGAGCCACTGCTCCCGGTCCTAGAGCTCTTTACTCTTTCCCCACTGTATCCTAACTCTTTTGGCAACCTGGACTAAAAGAACATTTGAGATAATGTTTGACAGTGACAGGTACCATATAGGAAGAAGTTGTTTAGCTGAAATACCAAAAAATAACTCATGTGAGTGGTGGTTTGATGAAAGAAATTTGTGTCATTCAGCATGTAATAGAATCAGAACTGAACACTAAACCATAAATTAAAAAAATACAGTGGGTCAGAGTAGTAGTACAGTTTGAAGACAGTAATACCTGGAATTGAGCATCATGTCTGTCATTCTTAAATTTGCATGCATCTTTCTAACAG
Seq C2 exon
GGGAGGTAGACATGTAGCAGTAAAAATAGTTAAAAATGTGGATAGATACTGTGAAGCTGCTCGCTCAGAAATACAAGTTCTGGAACATCTGAATACAACAGACCCCAACAGTACTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000013441-CLK1:NM_001162407:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF105774=UPF0560=FE(12.2=100),PF0006920=Pkinase=PU(11.3=95.7)
A:
NA
C2:
PF105774=UPF0560=PD(2.2=10.0),PF0006920=Pkinase=FE(12.3=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)