DreINT0047627 @ danRer10
Intron Retention
Gene
ENSDARG00000089372 | clk4a
Description
CDC-like kinase 4a [Source:ZFIN;Acc:ZDB-GENE-030131-576]
Coordinates
chr14:6629351-6629707:-
Coord C1 exon
chr14:6629541-6629707
Coord A exon
chr14:6629446-6629540
Coord C2 exon
chr14:6629351-6629445
Length
95 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TTTTTTCTTTGCCGGTTCAGTTC
3' ss Score
8.15
Exon sequences
Seq C1 exon
TGCTTGTGTGCGGATGTACGACTGGTTTGATCACCACGGGCACATCTGCATTGCCTTTGAGCTGCTGGGCTTGAGCACGTATGATTTTCTGAAGGAAAATAACTTTCAGCCCTTCTATATCAACCACATCAGGCACATGGCCTACCAGATCATCAGAGCAGTCAGAT
Seq A exon
GTGAGTCACGGATCTTGTTCAATTGCATCTTTTTCCTCTGCGCGTTTGGATGAAACACAGATTTAATCTTGCGCTTTTTTTCTTTGCCGGTTCAG
Seq C2 exon
TTCTTCACAAGAACAAGCTGACACACACTGACCTGAAGCCAGAGAACATCCTCTTTGTTAATTCGGAGTATAACATTAGGTACAACTCAAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000089372:ENSDART00000162196:2
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(17.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.5=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:
GGCACATCTGCATTGCCTTTG
R:
GGCTTCAGGTCAGTGTGTGTC
Band lengths:
169-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]