GgaINT0017808 @ galGal4
Intron Retention
Gene
ENSGALG00000006057 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr13:13452797-13453183:+
Coord C1 exon
chr13:13452797-13452876
Coord A exon
chr13:13452877-13453095
Coord C2 exon
chr13:13453096-13453183
Length
219 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
ATCTTTTCCTTGCCACACAGAAA
3' ss Score
7.33
Exon sequences
Seq C1 exon
ACACATGACAGTAAAGAACACTTGGCAATGATGGAGAGAATACTGGGGCCTCTGCCAGCTCATATGATCAAGAAATCCAG
Seq A exon
GTAAGTACATGACAGAAGGAGTAAGTTGCCTAGTGTATTCCTGTTGTAAAAGAAACTTCAAAGCTTTCATTATTAATTGTGAGCTTCTGAAAGTTCAGATAAAAAGACTTGCAGGCTTGTTAGCTGCTAGTCTGTTGTGAGAGATTGTGTCAGTTTTAGCTGAATGTACGCAGTTGAGAACAGTCCTAACAGTGACAGCATCTTTTCCTTGCCACACAG
Seq C2 exon
AAAGCACTACTTTCACCATAACCAGTTGGACTGGGATGAGCACAGTTCTGCAGGCCGGTATGTCAGGCGGCGCTGTAAGCCTTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006057:ENSGALT00000009766:11
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(9.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGACAGTAAAGAACACTTGGCA
R:
CTTACAGCGCCGCCTGACATA
Band lengths:
157-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]