DreINT0047629 @ danRer10
Intron Retention
Gene
ENSDARG00000089372 | clk4a
Description
CDC-like kinase 4a [Source:ZFIN;Acc:ZDB-GENE-030131-576]
Coordinates
chr14:6628964-6629265:-
Coord C1 exon
chr14:6629136-6629265
Coord A exon
chr14:6629047-6629135
Coord C2 exon
chr14:6628964-6629046
Length
89 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAAC
5' ss Score
3.32
3' ss Seq
TCTGTTTTCATTTCTATCAGATT
3' ss Score
9.53
Exon sequences
Seq C1 exon
AAGAGGGATGAGAGAACTGTGAAGAATCCTGATGTAAAAGTGGTGGATTTTGGGAATGCAACATACGAGCATGAGCATCATACATCCGTAGTGTCCACACGGCATTATAGAGCTCCAGAGGTTATTCTGG
Seq A exon
GTAAACAGTTGTTTTTATTAATTGATTTTTGAGGTAGATTGTCACGATCGCTTGCTAAAACTAAAACAATCTGTTTTCATTTCTATCAG
Seq C2 exon
ATTTGGGCTGGAGTCATTCCTGTGACGTGTGGAGCGTGGGGTGTATTCTCATTGAGTACTATCTAGGATCCACTCTATTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000089372:ENSDART00000162196:4
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(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.5=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:
AGAGGGATGAGAGAACTGTGA
R:
GAGAATACACCCCACGCTCCA
Band lengths:
179-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]