HsaINT1007856 @ hg38
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr1:155263950-155264300:-
Coord C1 exon
chr1:155264221-155264300
Coord A exon
chr1:155264041-155264220
Coord C2 exon
chr1:155263950-155264040
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:ENST00000368361:11
Average complexity
IR
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(8.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]
SPECIAL DATASETS
- Autistic and control brains