DreINT0047630 @ danRer10
Intron Retention
Gene
ENSDARG00000089372 | clk4a
Description
CDC-like kinase 4a [Source:ZFIN;Acc:ZDB-GENE-030131-576]
Coordinates
chr14:6628791-6629046:-
Coord C1 exon
chr14:6628964-6629046
Coord A exon
chr14:6628871-6628963
Coord C2 exon
chr14:6628791-6628870
Length
93 bp
Sequences
Splice sites
5' ss Seq
CAGGTCATT
5' ss Score
4.45
3' ss Seq
ACAAATTATTTTTATTTTAGACC
3' ss Score
6.93
Exon sequences
Seq C1 exon
ATTTGGGCTGGAGTCATTCCTGTGACGTGTGGAGCGTGGGGTGTATTCTCATTGAGTACTATCTAGGATCCACTCTATTTCAG
Seq A exon
GTCATTGTCTTTTGAGTTTCGGTTGTTGTTCAGTTATTTGACATTTTAGACATGCTTTTTTTTTTTTTTTTAAACAAATTATTTTTATTTTAG
Seq C2 exon
ACCCATGACAGTAAAGAGCATTTGGCCATGATGGAGCGAGTGCTGGGCCCCATACCAACACACATGTTGCAGAAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000089372:ENSDART00000162196:5
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(8.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGGCTGGAGTCATTCCTGT
R:
TGTTTTCTGCAACATGTGTGT
Band lengths:
159-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]