GgaINT0017800 @ galGal4
Intron Retention
Gene
ENSGALG00000006057 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr13:13448294-13449803:+
Coord C1 exon
chr13:13448294-13448519
Coord A exon
chr13:13448520-13449712
Coord C2 exon
chr13:13449713-13449803
Length
1193 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGA
5' ss Score
7.72
3' ss Seq
GATCTTGGTGCCGTTTCCAGAAG
3' ss Score
7.02
Exon sequences
Seq C1 exon
TCATTATTTGGACGATAGAACCATAAATGAAAGAGACCATCATGACCGGAGATATGTTGAGGAGTACAGAAATGACTTCTGTGAAGTATATGACCACAGGCATTATCACAGAGACTATGAAAAGAGTCACCATCATCACTATAGCAAATCCTCTGGTCGGAGCAGGAAAAGTAGTCATAAAAGGAAGCATAAGAGGCATCATTGCTCCAGTCACCAATCACATTCG
Seq A exon
GTATGAGTAATTTTTAACTTTATTATTAATGAATTAGTGGCAATAGACTTCTTAAGTGACTGCTAGAACTTCAATTCCTGATCACAGTTCTTTGGGGAACTATTTTATTACTGAAGGATTTGTAGTTGAATCCATTTGTGAGGATGTGAGTATGTTCTTAGTTGCAAGTTTTGGATGGGAGTGTTGGGGGGGCCAGCACTAGCTGCATACTGGGTGTGTAGGCAGCAAGTAGCCACAGCACTGGGATTATTTTGAGAAATGTTACCTTGAAAACGAAGGCACATAACTATGCTGCTGTGCAGTGCAGTCATCCCTTTAATCTTGCAGCATAGTGAACTGTCTGGTTTTCAGGTAGACTGTGAGATGCCATCCATGTTATTATTAAAAGTAATTGAAATAAAATGCCTTTTAAATGTAAACCTAATTGGGAGTATGAAACGTGCATGTCTGGTAAATTGATGAGAAGAAGCTGCACAATTCTGCACCTGATTTCAGGAAACTTTACTAAGTCAGGTGCCTGGCCAGTGGCAGCTAATGTCTCAGTGAAGATATGATAAACTTGCTGCTTGTTTTCATTGAAGGCACGCTGAATTTCTCATGACGGGCACAACGCCTGCTGGTAGATCTTAGCTCCCAGTATTTTATGCCACGTTCCTGCTATAGAAACAGCAGGTTGTATTAGATTATGCCATGCAGACCAATAGCTTGAAAGTAATTTTTCTTCACTCTTTACCCACGTGGGAAGTAAAATTACTTGACGGCCTTTAATATTTAGATGAGAAGAATTGTGTGTTTTAAAAATAGAGACATTTCATCTGACTGTAAGCTTAGCTGTATGAACAAATATTGCCTTTTGCTTTATGATAGCAAAGTATTAGAAATAGTGACGTTGCATACTTAATCTGTTTTCAATTAAGCCACTGTTTGAGAGTCGAAATTGTGTTGTTTTTTTCTGTTGCCTTATCACTTTAAGTATTTATCTGAAAATCTGTTCCTTGCCATGTTTTTCTTCTGTAACATAAACTGTGCCCTGTGAATTTCTGGGGACTGAATTTGAAATTGCTCCTGCCAACTGTTCGTGGCCTGGTGCGTTACTGAATGCCTGAATATCTCCCCGCTGAATGAATTGCGTATTCTGCCCTGAATTCACTCTGATATATTGATTGGCTGGACGATCTTGGTGCCGTTTCCAG
Seq C2 exon
AAGAGTCACCGAAGGAAAAGATCCAGGAGTGTAGAGGATGATGAGGAGGGTCACCTGATCTGTGAAAGTGGAGACGTTCTAAGAGCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006057:ENSGALT00000009766:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.737 A=NA C2=0.484
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(0.1=0.0)
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:
TTTGGACGATAGAACCATAAATGAAA
R:
TCTTGCTCTTAGAACGTCTCCAC
Band lengths:
310-1503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]