HsaINT0036466 @ hg19
Intron Retention
Gene
ENSG00000113240 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:13659]
Coordinates
chr5:178039797-178040640:-
Coord C1 exon
chr5:178040474-178040640
Coord A exon
chr5:178039892-178040473
Coord C2 exon
chr5:178039797-178039891
Length
582 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
GTGCTTTTGTTCTCTTGTAGTTT
3' ss Score
9.52
Exon sequences
Seq C1 exon
CCGATGTGTCCAGATGCTAGAATGGTTTGATCATCATGGTCATGTTTGTATTGTGTTTGAACTACTGGGACTTAGTACTTACGATTTCATTAAAGAAAACAGCTTTCTGCCATTTCAAATTGACCACATCAGGCAGATGGCGTATCAGATCTGCCAGTCAATAAATT
Seq A exon
GTAAGTACACTTGATAAATCTTTATTTTTATTTATTTATTTATTTATTTATTTTGAGACGGAGTCTCGCTCTGTCACCCAGGCTGGAGTGCAGTGGCGCTCTCGGGTCCCAGCAAGCTCAGCCTCCCGGGTTCACGCCATTTTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCACCACCATGCCCAGCTAATTTTTTGTATTTTTAGTAGAGATGGGATTTCACAGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTTGTGATTGCCCCCCTCGGCCTCCCAAAGTGCTGGGGTTATAGGCGTGAGCCACTGTGCACAGCAATAAATCTTTATTTTTAAATATTTTTTATGTTTGTACCTCCTTAACAATTAAGATAAATCTTTAAGCACCAGAAAACTTGTTTTTATTATACAAGCTATATATCCAAATGTTGTCACTAAAAAAACAGACATTTTACAAGTAAAGATGAATCGTCTCTTGACCACTATATCCTTTGCCAGTCCTCCTTTCCCTCCTAGTACAAATTAAGTTTGTAAGTGAAACTAATAATGTGCTTTTGTTCTCTTGTAG
Seq C2 exon
TTTTACATCATAATAAATTAACCCATACAGATCTGAAGCCTGAAAATATTTTGTTTGTGAAGTCTGACTATGTAGTCAAATATAATTCTAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113240-CLK4:NM_020666:7
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(17.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.0=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:
CCGATGTGTCCAGATGCTAGA
R:
ACTACATAGTCAGACTTCACAAACA
Band lengths:
243-825
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)