HsaINT0036434 @ hg19
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:2069]
Coordinates
chr1:155233741-155234091:-
Coord C1 exon
chr1:155234012-155234091
Coord A exon
chr1:155233832-155234011
Coord C2 exon
chr1:155233741-155233831
Length
180 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAC
5' ss Score
5.54
3' ss Seq
AACCTCCCCTTCCCCTCTAGAAA
3' ss Score
9.72
Exon sequences
Seq C1 exon
ACCCATGACAACAGAGAGCATCTAGCCATGATGGAAAGGATCTTGGGTCCTATCCCTTCCCGGATGATCCGAAAGACAAG
Seq A exon
GTGAACCTTGAGGGGGCACTAGTTAACTCTTTTCCTTTTCTCTCCACAGAATTGGTCTATTTCACATCATTTTCTTTTTTCTTTGATACCTCCTCTCCCCCCAGTTACTTTCAGATGGGGAAATAAGGGAATTGTAACAAGGGTGACCTTCTGATTCCTCAACCTCCCCTTCCCCTCTAG
Seq C2 exon
AAAGCAGAAATATTTTTACCGGGGTCGCCTGGATTGGGATGAGAACACATCAGCTGGGCGCTATGTTCGTGAGAACTGCAAACCGCTGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444-CLK2:NM_003993:11
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(8.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.5=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:
ACCCATGACAACAGAGAGCAT
R:
GCGGTTTGCAGTTCTCACGAA
Band lengths:
166-346
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)