GgaINT0030412 @ galGal4
Intron Retention
Gene
ENSGALG00000001362 | CLK3
Description
dual specificity protein kinase CLK3 [Source:RefSeq peptide;Acc:NP_001012542]
Coordinates
chr10:1974016-1974682:-
Coord C1 exon
chr10:1974592-1974682
Coord A exon
chr10:1974400-1974591
Coord C2 exon
chr10:1974016-1974399
Length
192 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
CACCTGCCCTTCTGTTTTAGACA
3' ss Score
10.46
Exon sequences
Seq C1 exon
AAAGCAGAAATACTTTTACAAAGGGAACCTGGTATGGGATGAAAACACATCTGATGGGAGATACGTCCAAGAGAACTGCAAGCCGCTGCGG
Seq A exon
GTAAGTGCTGCTGAATCCCTGTGGGGTTCCCTTCCTGAGATATGTGCTTGGGGGAGGGCAGGAGGTACAAAGCCCCAGACTTGATGAGGTCGTGCCAGCCATAACCTTGCAGCAGGTCACAAAACTAGGGGCTGGTGTTTGCTCCCTCTTGTACTGGAATCTACACGTGTCTCACCTGCCCTTCTGTTTTAG
Seq C2 exon
ACATACATGCTGCACGACTCACTGGAACACGCACAACTCTTTGACTTGATTAGAAGGATGCTGGAATTTGACCCCTCCCGGAGGATCACGTTTTCAGAAGCTCTCCTGCATCCCTTCTTTGCTGGCCTCTCTGCAGAGGAAAGGATGCTGTGTGGTCGTGGCACCAGCCGGGACCTGAGTAGATGACAGCTGGGGAGGGTGTGATACCTGCTAGATTTGTACATATGGGAGTGGCGCTCTCTTCTCTCAGAGTTCAGAGGGGCACTGTGACATGAACCCTGGGTTGGGGAGGTGAGGAAAAGCTACAGCAGAAAGCACAGATTTGTCTATTTATATGTTGTAAAGTTAAAATAAAGTGTTTCTTATTGTTTGATACTTCCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001362:ENSGALT00000002079:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(9.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(12.3=62.9)
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:
ACATCTGATGGGAGATACGTCCA
R:
CCTCCCCAGCTGTCATCTACT
Band lengths:
243-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]