HsaINT0036453 @ hg19
Intron Retention
Gene
ENSG00000179335 | CLK3
Description
CDC-like kinase 3 [Source:HGNC Symbol;Acc:2071]
Coordinates
chr15:74917243-74918309:+
Coord C1 exon
chr15:74917243-74917359
Coord A exon
chr15:74917360-74918142
Coord C2 exon
chr15:74918143-74918309
Length
783 bp
Sequences
Splice sites
5' ss Seq
GTTGTGAGT
5' ss Score
6.59
3' ss Seq
TGCCCATCCTCCTCCTCCAGCCT
3' ss Score
8.2
Exon sequences
Seq C1 exon
AGGGAAGTCTCAGGTTGCCCTGAAGATCATCCGCAACGTGGGCAAGTACCGGGAGGCTGCCCGGCTAGAAATCAACGTGCTCAAAAAAATCAAGGAGAAGGACAAAGAAAACAAGTT
Seq A exon
GTGAGTATCTGCAAGGAGTGGGAGGGAAGCCTTCAGTGGGGCTGCTGGACCCCCAGGGGCTTAGTAGTGTGCCTTCACCCATCCGCACTGTGCCTTCTCCCCACACTCAGAACCAGGGGAGTGTGGCAAAGGTCTTGCTGGAAGCCTTTAGACTGCAGTCCAGTCTTCACCCCAGCTGTCTCTGTGTCCTGAGGAAGGCCTCCCAGCCCTGCGTTTTGTGAATTGGGGAGCTCACTGGGTTATGCTGGGCATAAAACAAGATAAAAACATGAAGTTGGGGCTCTCACATAGTAGGAGATACCCAAAGGAGGGCCTTTCTGTGGCAGACACACTGAGCACTCTCCTCCACGCACTGTGCTGAGCCTGGGCAGATGGGTGAATCCAGCACAGACCCTCACGAAGCTCAGCAGAGTGAGCAAGTGGAGAAAAGCAGCACCAGTCCTGCGGAGTGCACTAGCACTTTCCATCTCTCCCTCAGCAACTCTGAGGCAGGGCTGCTTCCATATCATAAGTAGGGAAGCTCGGAGGGCTTGGACCAGAACCGTGGACATCTCCCCTACCCCCCGCAGGAAGCTTAGTCCTTGCCCAGAGCTCATCTGGGTATTGGGTGATGGCTGGTGGGGAGAGGTGCTCTTGCTCTGATTTCTCTTGCACTGTGTGTATCTGCATTCTGGTGTGTGACCCGGTGGCCTAGGAGAGAGTTGGGAACTGTCTTCATCTGAGAGAGGGGGTGAGGCAGGCCCCCAGCACACAGCCTGAGCCCTGCCCATCCTCCTCCTCCAG
Seq C2 exon
CCTGTGTGTCTTGATGTCTGACTGGTTCAACTTCCACGGTCACATGTGCATCGCCTTTGAGCTCCTGGGCAAGAACACCTTTGAGTTCCTGAAGGAGAATAACTTCCAGCCTTACCCCCTACCACATGTCCGGCACATGGCCTACCAGCTCTGCCACGCCCTTAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179335-CLK3:NM_003992:6
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(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=PU(27.3=98.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAAGTCTCAGGTTGCCCT
R:
ATCTAAGGGCGTGGCAGAGC
Band lengths:
283-1066
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)