GgaINT1009610 @ galGal4
Intron Retention
Gene
ENSGALG00000028438 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr7:10800687-10802287:-
Coord C1 exon
chr7:10802221-10802287
Coord A exon
chr7:10800804-10802220
Coord C2 exon
chr7:10800687-10800803
Length
1417 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
GTTTAACCTGTTCATTTCAGGGG
3' ss Score
6.83
Exon sequences
Seq C1 exon
ATGAGATTGTTGCTACTTTGGGTGAAGGAGCTTTTGGAAAAGTGGTGGAATGCATCGATCACAAAGC
Seq A exon
GTAAGTCTTTTTTTCTGAAAACCTGTCATTTGTTGGGCTGGTAGAATCGCAGTGTGGTTCATCAAGTGCTCTCAGTGATTTTATTGATTTTATCCTTATTAGCTCATATGTTGCTCTGTGTATTTCTTAACGTTTTGACATAAGAGATTAGGGTTGTTTTTTTTTAATTCATCAGTGACATTACTGTGATAGTTACAAATGCTTTGTAGCTGGAATTGGAGATCACGCTGCTCCACTTGCTCATTAAAATTTCCTTCTGGGGAAGGTTTCTTGCATGGTCTTTGGAACGTACGCTGTTGGGTGTTGGAGAGTTTTTGCTGCATCCCTTGAGGTTGAGAATTAAGCACAAATGTGTGTTTAAATATAAAAGGAGGTAAACGAGCAATGCACTGGGCAGAGTTTGCAAAGATGTGCCGTGAGCTGGTTCTTTAAACATGCCCACATGAGCCCTGCTCTGTGAGCGCTGGTGCAGGCTTTCTCAGCCCAGCATTCAGTTCATGTCCCAGTGCCAGTTCCACTTGCCACAAGTAGCACCTAGCACTTCTGTTTTGCGATTGCTGTAATATAATGCTGGGAAACTTCAGGAAAAGCTTCAGCTGCTTATGTGAAGTTATTTTGTCCCTGGCATTTTTGCTTCTGGGGAGTTGAACCCTTCCTGCAGTTAGGCCTTATTAGCAGGTTATTCTATCATCGCACGTCACTGTTGCTGCACAGTTGCAATTTAAGTTTCCCCTTTAGTCATGCGGTAGAGTTGGATGCAGGAAGCTGTCCTTTTCCTTGGTGTAAATGTGTACTGCATTGTGCCCTGGGGAGAGCACCTTAATGTAGCAGTTGTGCAAAGCTGCTGGAGGCAGCATTAGGAGGGAAATTAGTGTCTGTCTTTAAGAATACTACTGACACACCAGGTATTGAGTATGTTTTAAAAACTAGTACTTGTGCTTGTGTCTGTACGGACTTTTGTTACTATTAAAAGTCAGTATATACTTCCAATGCTTGAAGGGAGCCTATAAGCACGAAGGTGAGTAACTTTATATGGCCTGACAGTCTTAGGACATAGGGAAGTGGCTTTATGTTTAAAGATGGGAAATTTAGGTTAGATATTAGGAAGAAATAATTTACTTACGTGGTGAGGCAGTGGCACAGGCTGCACAGGGACGCTGTGGACGCCCCATTCTTGGAGGTGTTGAAGGCCAGGCTGGGGCACTGGGCAGCCTGATCTGGTGGGTGACAGCCCACCTGTGGCTGGGGGTTAGAACTGGGTGGACTTGAAGGTTACTTCCAGCATAAACCGTTCTTTGAAAATGCTTTATCTGGTAAGGTTCACAGGTTTCATTTGTTTTTATACAGTGTATGTGGTAGTAATCAAGGAATCGTTGAAACTATTCCTTCTAATGACTGTTTAACCTGTTCATTTCAG
Seq C2 exon
GGGAGGTAGACATGTAGCTGTGAAAATAGTAAAAAATGTGGATAGGTACTCTGAAGCAGCACGTTCAGAAGTACAAGTACTGGAACATTTAAATGCATCAGACCCCAGCAATACATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028438:ENSGALT00000044904:5
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=0.050
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(6.9=95.7)
A:
NA
C2:
PF0006920=Pkinase=FE(12.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGATTGTTGCTACTTTGGGTGA
R:
ATGTATTGCTGGGGTCTGATGC
Band lengths:
182-1599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]