HsaINT0036468 @ hg19
Intron Retention
Gene
ENSG00000113240 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:13659]
Coordinates
chr5:178035377-178039546:-
Coord C1 exon
chr5:178039417-178039546
Coord A exon
chr5:178035460-178039416
Coord C2 exon
chr5:178035377-178035459
Length
3957 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TTCTATTTGTTTTAAAATAGCTT
3' ss Score
5.87
Exon sequences
Seq C1 exon
AAACGTGATGAACGCACACTGAAAAACACAGATATCAAAGTTGTTGACTTTGGAAGTGCAACGTATGATGATGAACATCACAGTACTTTGGTGTCTACCCGGCACTACAGAGCTCCCGAGGTCATTTTGG
Seq A exon
GTCAGTAGACACCAGGCTTTCTAATATTATAATTGAAGAAGAGATTTTTGTTCTTTACAGCTTTACTGGTGGGGTGGGGAAGTATGATCTTCTCAGCAGGATTCAGAAAACGTTTTCTATTTTCATAAAAAATGTGTGGACATTGCTATAAATACTTTTCCTGAGTGGTAAACATGTGATACTGTCTGGGAAAGATATTCCAGGTGGTGGTTATTTTTGAACAAGTAAATCTTAAATGATCATAAGAGAACAGGCTGTGTTAGCTAAATGCATCAAAGAAATGTGATTTTGAAGTTATATGAGTACCTATTTTCATGCCATCACAAAAGCACATGGCTGGTAAAAATACTGAGGAAACTGGTTGGCAGATGTCTAGAATATAGGATGGATAAAGGTCAAGAGAAGAAAGAGGCTTCTCTAAGAGCTCCTGTGATAACCCTTGATGTGAGAAAGTCTGGGAAAGAAAATGAGTTAAGGTGCAGAGTTTTCAAATAAGAAGGGACTTATTAAGGGAGTGTTATGCCTCAACATTAAAAGTTATAGATCAGGTGTGTTAATAAATCAGGGAAGTCAGAGATTGGCTTGGGAGCTTGGAGACATTGGGAAACATTCAGATCAGGCATATCAAGAGAGTTGAATGTAATAAGCTGATTACTTAGCCTAAAGTTAGGTCCAACTGAGGTTAGATTGTAAAGCATTTTTGTGGAATCGTATTTTAATACTTTTTACTTTTTTTGTGTGTCCAACGGGACTTGGTAGTTCAGAATAGGAGTGTAAAAGCAAACTCTTGATACTTACCTAGAGTAGAGTAGTAAAGGAGTGAGGAAATCAAGAATCCTGTGCAGCTCTTGCCCACAGAACTTCCCTTGATGACGGAAATGTTCCATTTCTGCACTGTCCCATATGGTAGCCACTAGTCACTGTGCGTGACTGACTACCTTGTAGTGGGGCCAGTGTGACTGAGGAGAACTGAGTTTTGAGTTTACATTAATTTTATTTCAGATTTAAACAGCCACATGTGGCTAGTGGTTACCATATTGAACAAGCACAACTCTAGAGCTTGTCTTTTAAATGCGTAATAATAGGGTTTCTGCGTAGTACAAATTGAAAGGAGCTACTGTGTAAGGGTAAAAGAAAGCAATATGGGAAGAGATAGTGGACAGAGAGGTATTTTCAGAGATTAGAAGGCAATAGATTCCTCATTTTAAGAATCAGATTTTTCCCCAAATATTTGGCATTTTTTCTTTGTTATTGGTATATCAAACAGTGGTGCATCGTACAGTGTGCTATCCTAGATTGAGTAAAATATAGTATATAGTAACCCCCCCCTTTTTTTTTTCTTTGAGATGGAGTTTCACTTTGTCACCCAGGCTGGAGTGCAGTGGTACCATCTCGGCTCACTGCAACCTCCACCTCCCAGGTTCGCGCGATTCTCCTAACTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCCACCACCACACCCGGCTAATTTTTATAGTTTTTAGTAGAGATGGGGTTTCACCATGTTAGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCTCCTGCCTCGGCCTCCCAAAGTGCTTGGATTACAGGCGTGAGCCACCGCGCCCGGCCAAGGATTTTTTTTTTTTAATTTTTATGTTTTTTATAACAGAGACAGGGCCTCACCATGTTGCACAGGCTGGTCTCGAACTCCTGGGCTCAAGTGATCCGCCTGCCTTGGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACCGCACCCACCAGAATATGGTCAATCTTATTAATAAAGTTCCAAATGTGGCCAAGCAAGGGATAGTACAAATCTGAAATTGGAGTCCCTGGCCTTGAGGAGAAAGAATCAGGAGATTGGGAGAATAGAAAGGTCCTTTGTTTGTGGAGTGAGGATGAAGGCATAATGCAATTGGAGGGGAAAATGTAGTCAGGTGCTAGAGTTGAAGTAGGCAGTTGGCCTTATGTTGGGTATAAAAGCTAACTCATCCAAGAATGAGATGATTTAGAATGGTGTACTGCAGAAGATTACAGTCACCTGGGAAAAGACTAAATTGGGAGATAGGAGTGGTTGAAAAATAAAACTTTTTTTTTTTTTTGAGACGCAGTCTTGCACTGTCACCCGGGCTGGACTGCAGTGGCACGATCTCGGCTCACTGCAACTTCTGCCTCCCGGGTTCAAGCGATTCTCCTGTGTCAGCCTCCCAAGTAGCTGGGCTTACAGGTGCCCGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCACATTGGCCAGGCTGGTCTCCAACTCCTGACCTTGTGATTCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGCCTGGTTGAAAAATAAAACTTTTATGAGGTCCAAGCTCTAGCATTTACGGATTTTGTATGTGTTAATAGGTAGAAACCATGCTCCATTATTTATTTATTTATTTTTTGAGACAGAGTCTCACTCTGTTGCCTGGCCTGGAGTGCAGTGGTGCAATCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAAGTGCACACCACCACACCCAACTAATTTATATATATATATATATATATATTTTAAAATTTTTATTATTTTTTATTTTTGTTATTTGTTTATTTATTTTTTTGAGATGGAGTTTTGCTTTTATTGCCCAGGCTAGAGTGCAGTGGCGCAATCTCAGCTTACTGCAACCTCTGCCTTCCGGTTTCAAGCCATTCTCCTGCCTCAGCCTCCCAAGTCACTGGGATTACAGGCGTCTGCCACCACGCCCAGCTAATTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGTCAGACTGGTCTCGAACTGCCAACCTGGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCGCGCCTGGCCCATGCTCTATTATTATCCATTTGTTCAAATGACAGACACTGGAGCGGATGGTTAACAAAAATGACTTAAGTCATTATATATTGACTTGAATATATTTCTTCTTTTATCTTTAACTTCAGTGATAATGAAAGTAATTGAAATGTCTTTGAATGTAGATTTTATTTATACATTTTTTAACTAAATATTTGATCTTTGAAATATTAAAATATCTATGTGGTTGGTTCTTTCTCCTTCCCAGTCAGTATAGATTTAAGAAGGCTAGATGTTTTATTCTGATCTGAATAATACTGTCATTGAGAATTCTGAAGGAGAAAGTATATAAAATCATGTATAGACAGCGCCGATGTTTATGTATAGATCCCTCTCTGAGCTCCAATGTGTCTGTAATTTCTGCTTATAGGTGAAACTGCTTAAAATTCCCATTATACCTTTTATACAATTTGTGCAAAACGGTAATATTTCTCTTAACGGAAGAAGTAAACTCATGCATCAAGCTGATGATAATTGATAAGGCATTAGTAATTTCATTCTGAGGATAATTATAAACCTGTATTTGTGCTAATAAAATATAAAAATTCTTGGACTAACCATGAACTGAGCATAATAATGGTTTTAACAGCAGTGCTCTCCCATTATATAAACAGTTCAGAGACTATGGAATATTTGCACGAATTGGTTGTATACTTGGAAAATGGTAGCCCCCTTTTATTTTACATAACATGCACCCCTCCCTAGTTAGAATACTGTGTCTTGATGTGAGCATATGGACTATGGAGTGTGTTGAATAGCATTTGCTGTAAAACTAGAACTATAAACCCTGAATTTGGTGTCTTATTCTCCCAAATGGGTTCTGTAAAGGGAGCACTCATATAGGGAAGGATTTAATGTACTGTCAATTAAAAGTTTTTGCATAGTAAAATGTTTCTATTTGTTTTAAAATAG
Seq C2 exon
CTTTAGGTTGGTCTCAGCCTTGTGATGTTTGGAGCATAGGTTGCATTCTTATTGAATATTACCTTGGTTTCACAGTCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113240-CLK4:NM_020666:9
Average complexity
IR-S
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(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(11.3=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:
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)