HsaINT0036439 @ hg19
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:2069]
Coordinates
chr1:155237801-155238150:-
Coord C1 exon
chr1:155238084-155238150
Coord A exon
chr1:155237918-155238083
Coord C2 exon
chr1:155237801-155237917
Length
166 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CCTCTCCTGCCAACTTACAGGGG
3' ss Score
8.1
Exon sequences
Seq C1 exon
ATGAAATCGTTAGCACCTTAGGAGAGGGGACCTTCGGCCGAGTTGTACAATGTGTTGACCATCGCAG
Seq A exon
GTAACTGTCAGTCCCTCCCTACTATGTGGGGCTAAAGAGATGGTTGGGGTTATATGGGGCTTTTTTGCTAATTAACCTGAGGTAGAATTTCTTAGTCCCCCTACAGCCCTGTTCATTTTGAGACATTCTTGAGAACCCAGCAAAAGCCTCTCCTGCCAACTTACAG
Seq C2 exon
GGGTGGGGCTCGAGTTGCCCTGAAGATCATTAAGAATGTGGAGAAGTACAAGGAAGCAGCTCGACTTGAGATCAACGTGCTAGAGAAAATCAATGAGAAAGACCCTGACAACAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444-CLK2:NM_003993:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(6.9=95.7)
A:
NA
C2:
PF0006920=Pkinase=FE(12.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTTAGCACCTTAGGAGAGGG
R:
TTCTTGTTGTCAGGGTCTTTCTCA
Band lengths:
178-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)