HsaINT0036440 @ hg38
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr1:155266729-155268126:-
Coord C1 exon
chr1:155268010-155268126
Coord A exon
chr1:155266896-155268009
Coord C2 exon
chr1:155266729-155266895
Length
1114 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
TCCCCCATCTCTCTTCTCAGCCT
3' ss Score
8.55
Exon sequences
Seq C1 exon
GGGTGGGGCTCGAGTTGCCCTGAAGATCATTAAGAATGTGGAGAAGTACAAGGAAGCAGCTCGACTTGAGATCAACGTGCTAGAGAAAATCAATGAGAAAGACCCTGACAACAAGAA
Seq A exon
GTAAGCAAGCAAGGAAGTATGTAGGGAGGCTGAGAGCCCCAACCCCTACACGGGAGAGACTTCTAGACCTGGTTTAGGCAGACAGGGGAGTCCTAGACCTTCTCATCCATTCATCTTTTGTTCATCATCTTAGAGTAGTAGAACATCAGGGTAGGAAAGGGGGGGGGCCCATGACATTCCTTAATCCACTCCCCTTGTTTTCAGGGAAGTTAGATTGCTCTGTCGTTTGACCCCAGCCTAGAATGGCTTCTGTAGAGATATACCCTGGACATAGCCCTAGGACTGAGCATCAACCTCATCGAACAATGAATTAAGCTTTTATAAGTAGAACTATGCTGATAAGGCCACAGACATTTATGCAGTAATATTTTGTTCACATACATTCACAGTCCAAAAATAGAATAAGGACTTTAAGCCAAGATATGAGGCCAGTAGGTATAAATAGGAGCCCAGTGGTAGCTAGTGGTGAATGAATATCAGGAGTTGGGCTGGGGTTGGGATTTAGGATGGACAGTTTGATGATTCAGGATCTATACTGTTTGGAGCTTGGCACTCCACAGCTCTTCAGCAAATAGTTTTTGAACTATTTAAAATGACGCAGGAAGATATTTTGAAACTTGGGCTGGGCATGGTGGCTCACGCCTGTAATCCCAGCACTTTGGAGGCCGAGGCGGGTGGATCACAATGTCAGGAGTTCGAGACCAGCCTGGCCAATATGGTGAAACCCCGTCTGTACTAAAAATAAAAAAATTAGCCGGGCATGGTGGTGGACAACTGTAGTCCCAGCTACTTGGAAGGCTGAGGCAGGAGAATCGCTTGAACAGGAGGCAGAGGTTGCAGTGAGCCAAGATCGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACGCCATCTCAAAAACAAAAAAGAAAAAAACCTGGCAGATAGTACCATTCTTCTTGGGTCTGGTAGAGGCTACTCCTTAGCTGAACTGAATTTTGGTGTTAGTACTAGCTGGCATGGTTTTACACAAGTATGTGGAATCAACAGCTATGAAGTACCTCCTTGTTGGATGGCTGATGGGCAGATGGGAGCTCATCAGACAACCCCCCTTCCCCCATCTCTCTTCTCAG
Seq C2 exon
CCTCTGTGTCCAGATGTTTGACTGGTTTGACTACCATGGCCACATGTGTATCTCCTTTGAGCTTCTGGGCCTTAGCACCTTCGATTTCCTCAAAGACAACAACTACCTGCCCTACCCCATCCACCAAGTGCGCCACATGGCCTTCCAGCTGTGCCAGGCTGTCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444:ENST00000368361:6
Average complexity
IR
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(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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCGAGTTGCCCTGAAGAT
R:
ACTTGACAGCCTGGCACA
Band lengths:
278-1392
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