HsaINT0036448 @ hg19
Intron Retention
Gene
ENSG00000179335 | CLK3
Description
CDC-like kinase 3 [Source:HGNC Symbol;Acc:2071]
Coordinates
chr15:74921283-74922542:+
Coord C1 exon
chr15:74921283-74921373
Coord A exon
chr15:74921374-74922047
Coord C2 exon
chr15:74922048-74922542
Length
674 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CACCTTGTGTCCCTGAGCAGAGT
3' ss Score
6.12
Exon sequences
Seq C1 exon
GAAGCAGAAATATTTCTACAAAGGGGGCCTAGTTTGGGATGAGAACAGCTCTGACGGCCGGTATGTGAAGGAGAACTGCAAACCTCTGAAG
Seq A exon
GTCAGTTTCTGGCTACCCCCAGCTGAACTCATGCCAAGGAGAGACCCCAGGCACTGGGCAGACATACAGCAGAGACAGGCCAGGCCGCTAAAGGCTGCCTCCTTGATCCAGCTCTATGGGAGGCGGCACCCAAGACTGCTGGGTGCTGGCAATGGGGCTTCTTGCAAACTGCCCCAGAGGGGCCCTTAGCCCTACCCCTTCCCCATAGGGTGGCTATGAATGTAATTGGGGAACACCAGAAGAGCCAGATGTCAGAAGCCCTGCTGCTTCCTGTCCCTCTCTCTCCTCGAAATTTTGGGAAGAACTAGGCAGGACTGAGGTGAGGGGGAGGGAAGACCTAGACATGGCCAGGAAGCCTCTGTCAACTGCATTTGGTGCTCGGACAAGTGAATTTCGCAGAGGTGATCTCTACCCACCTGTCAGGACTTTGCATGTGGGGGCAGAGGCATCAACCCAGCAAGACACCTAGTAGCCTGGCAAGTTCCGAGCAAAACGTTAAACAGGCATGAAAGGAAAGGAGCTGCTCATTGTCCAGGAGGGCGGAAGTAGAGTCCTCCAAGGAGGCATCACTGCCTCCTCGATCCAGTCCAGCAAGGCGTCCCAGAGGCAAGGGGACCTGCTGTGGCTTCCCACGACCCTGCCGTCACACTGAGGCACCTTGTGTCCCTGAGCAG
Seq C2 exon
AGTTACATGCTCCAAGACTCCCTGGAGCACGTGCAGCTGTTTGACCTGATGAGGAGGATGTTAGAATTTGACCCTGCCCAGCGCATCACACTGGCCGAGGCCCTGCTGCACCCCTTCTTTGCTGGCCTGACCCCTGAGGAGCGGTCCTTCCACACCAGCCGCAACCCAAGCAGATGACAGGCACAGGCCACCGCATGAGGAGATGGAGGGCGGGACTGGGCCGCCCAGCCCCTTGACTCCAGCCTCGACCGCCAGGCCCCAGGCCAGAGCCACCCAATGAACAGTGCAATGTGAAGGAAGGCAGGAGCCTGCAGGGGAGCAGACTTGGTGCCCAGCTGCCAGAAAGCACAGATTTGACCCAAGCTATTTATATGTTATAAAGTTATAATAAAGTGTTTCTTACTGTTTGTAACCCCTGGTACCAGTGTGTCCATCTCCAGGCTCCTTGCCTTCCCCTTACCTGACCTTATTAATAAAGTCTTTCTTAGCAGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179335-CLK3:NM_003992:12
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=0.155
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(38.0=60.6),PF0385911=CG-1=PD(50.6=41.5)
A:
NA
C2:
PF0006920=Pkinase=PD(12.9=66.1)
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:
AAAGGGGGCCTAGTTTGGGAT
R:
CTGTTCATTGGGTGGCTCTGG
Band lengths:
356-1030
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)