HsaINT0036435 @ hg19
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:2069]
Coordinates
chr1:155232659-155233831:-
Coord C1 exon
chr1:155233741-155233831
Coord A exon
chr1:155233192-155233740
Coord C2 exon
chr1:155232659-155233191
Length
549 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
TTCCTGCCCTCCTCCACCAGCGG
3' ss Score
8.64
Exon sequences
Seq C1 exon
AAAGCAGAAATATTTTTACCGGGGTCGCCTGGATTGGGATGAGAACACATCAGCTGGGCGCTATGTTCGTGAGAACTGCAAACCGCTGCGG
Seq A exon
GTGAGCTGGGCTCGGGATAAATAGTGCCCACCGTCCAGAAGTCACTTCCTTCTTAGGGTGGTTTGCCCCCTGGAATGCTCTTCACAAGCAGAGGGTTAGGAAAGGAGGGGAGGAAAGCTGAAAGAAGACATCTTTGGTCAACAGAGGAAACATAAGAGGGAGTGGTTTTGTGGAGGGAAGGAGGTTAGACAGCCTAACCTTGAGACAACCAGAGATCAAAGCAATGTCCTGGATTCTTTAGGTCAGACAGAAAAGAATAAACTACCTTTGAAGAGCTTACATTTTAATGAGGAACTAAAGAAGATTCATGAAGTTGACAAGGATATACAAGTAGAAAGAACTTTCAAAGATTATGGAGTAATTGTGCTAGTGGGAAGGTAGGTTGAGCTATAATATCAGAAACGTTGGTCCTGGTGTGGTCGTGGTTAGGTAGCCTTCAAATTGGTTGCAAGCAGAGCCTTGGTTCTCCAAGAATGAAAGGTAGGGTCTTGAAGAAGGCAGGGTTTGTAAGGCATCCTGCCTCACCTTTTTCCTGCCCTCCTCCACCAG
Seq C2 exon
CGGTATCTGACCTCAGAGGCAGAGGAACACCACCAGCTCTTCGATCTGATTGAAAGCATGCTAGAGTATGAACCAGCTAAGCGGCTGACCTTGGGTGAAGCCCTTCAGCATCCTTTCTTCGCCCGCCTTCGGGCTGAGCCGCCCAACAAGTTGTGGGACTCCAGTCGGGATATCAGTCGGTGACGATCAGGCCCTGGGCCCCCCTGCATCTTTTATAGCAGTGGGTGTCCAGTCCAGGACACTGGTGCTTTTTTATACAAGAGAACGAGCCAGAGTTCACTCCTTCCTCCTGGCTCTCTATATACCTGTGAATATGTGAAATAGTGTAAATATGAAAGAACTTGTACCTATCACTTCAACCCCTGCCTTGTACATAATACTATTCCATCCACACAGTTTCCACCCTCACCTGCCCCCTCATACGGAGTTGGATGGGGGCCGAGTGAGGTAACCAGGTGGCATCTACCCCATGTTTTATAAGGAATTTTGTACAGTCTTTGTGAAATAAAATAACGTGCTTCATTTGACCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444-CLK2:NM_003993:12
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=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(9.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(12.3=63.9)
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:
CGCCTGGATTGGGATGAGAAC
R:
AGGAGTGAACTCTGGCTCGTT
Band lengths:
350-899
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)