HsaINT0036424 @ hg38
Intron Retention
Gene
ENSG00000013441 | CLK1
Description
CDC like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr2:200859680-200860215:-
Coord C1 exon
chr2:200860125-200860215
Coord A exon
chr2:200859747-200860124
Coord C2 exon
chr2:200859680-200859746
Length
378 bp
Sequences
Splice sites
5' ss Seq
GATGTATAG
5' ss Score
-2.49
3' ss Seq
GATTTATTTCTCTCTTTTAGATG
3' ss Score
11.67
Exon sequences
Seq C1 exon
AAGAGTCACCGAAGGAAAAGAACCAGGAGTGTAGAGGATGATGAGGAGGGTCACCTGATCTGTCAGAGTGGAGACGTACTAAGTGCAAGAT
Seq A exon
GTATAGAATATTTTTCAACACTTATTAACTTTTCAGATAACATAATCTATATATAGATTAAGCTTTCAGGGATTTGGAAATCTTTTTTTCTTTCTCTTTTTTGTTTTTGTTTTATTTTTCCATTTCTTTTGGTGGGGGGGATTGTATTTTTGCTTTCTTTAGAAATGTAATGTTTGTTATATAGAACTTCCAGAACAGTAATCAAATTAATGAAATTAGACCTAATAATTATGTTTTTTGATGGTGTTGACCAATAAAATATCTAGTGATAAGGAAATTTGTAGCATCAACTAGAATAATCTACATTGATAGCATTTATTGTGATAAGTACATTGTTTCCACTTCTTGATATGACTGAGATTTATTTCTCTCTTTTAG
Seq C2 exon
ATGAAATTGTTGATACTTTAGGTGAAGGAGCTTTTGGAAAAGTTGTGGAGTGCATCGATCATAAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000013441:ENST00000321356:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.538 A=NA C2=0.077
Domain overlap (PFAM):
C1:
PF105774=UPF0560=FE(16.7=100),PF0006920=Pkinase=PU(0.1=0.0)
A:
PF0006920=Pkinase=PU(6.6=91.3)
C2:
PF105774=UPF0560=FE(12.2=100),PF0006920=Pkinase=PU(11.3=95.7)
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