GgaINT1009605 @ galGal4
Intron Retention
Gene
ENSGALG00000028438 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr7:10804822-10806251:-
Coord C1 exon
chr7:10805308-10806251
Coord A exon
chr7:10804962-10805307
Coord C2 exon
chr7:10804822-10804961
Length
346 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGG
5' ss Score
6.79
3' ss Seq
AAACGTTGCGTGTGTTTCAGATG
3' ss Score
8.82
Exon sequences
Seq C1 exon
AGTGATTGATGGCTTGGAGACCTTGGATGAGCTGGAGAAGCTGCCTGTGAATGAGAAAACCTACCGACCTCTGAATGACGTTCACATCAAAGATATCACCATTCATGCCAACCCTTTTGCCCTGTGACCACCGACAGTCGTGACACATTCTTTAGAGGCTGGTCAGACCGACTGCTGGATGGCGGTGTTTGATGCACCATCAGACAGGGTTACAGGAGCTGGGCCGTACCTTGGCGCCGGGGCTTTGGCAGCTGTGATGTGGGTGAATTGCTACAGGGGAGCCTTGTGTTCCACAAGCCCGTGTTTCCAGGATGTATGATGACTTTTATTGACATGATTTTGACTTCTAAGTGTTGCTTTTTATACTTGTAAAAATAAGACTTTCAAATACAGATATATATTTTTTGCAACTCTGTCTTTTCTGTCATCTTTCTTAGTGGTACGATGTTGAAGCAACAGCCGTTGCAGACCACCGGCTTTCTGAAACCTTCCTGTGTCAATACTAATGTGCTGTACTTCATTGCTTTTTCAGAAAGTGTAGTACCCTAGCTAATTTTTCCCCCTAGGTGAAAGCAGTGTACCACACAGAGAAAACTCTCTGAAGGCAACGTTTTGGTTTCTCTTAGCGGGAGAGCACGGCGGGTTGTCGCAGGGGCACGCACCCCCCTGTGCTCGCTGCGGAGCGGCTGTGGGCGGGCAGGCAGGCAGGCAGGCAGGCACGGACGGCGGGCGGGGCGCTGAGGGAGCACCACCCCCCATAGGGCTCCGCCTCCGCCCCGCCCCGCTGTGTGACGCACCGCTCGCGCCATAATGTTCCGCCTCGCCGCCATTTTGTCGCGGCCGAGAGTTGAGAGCTGAGTGCGGCTAACGTGCGGAGGTAGCGACGGCTACAGAGAGAGTAGCGGCGGCGGTCGGAGAGCGCGGCGGCAACCCGGGCTGCTGAG
Seq A exon
GTGCGGGAACAGGGTCGTGCTGCCGGGCGGTGGGGCTGAGGGAAGCGGTGCGGGAGTGGGGGCCGCCTCCTGCCCGTCGGCGCGGACCCGGTCGGATGCCCCTCGGCCCCCTCCTCCCCGGGCCGCCATGTTGTGCGTCCGCCCCGCGGCAGAGAAAATGGCTCCAGCCGCCGCAGTGAGGGAGCCGGGCTCGGCATGGGGCTGGGCTGGGCTGTGGGGGGCTGAGGCTGCGACCGTTTGGGGGGGAGGGCGGGTGCGCTGAACGTGTGGGCTGTGCGCTGCGCTCCATGGGGACGGCCCCGTCTGGGCGTGCGGTTTGAGGAAGAAAACGTTGCGTGTGTTTCAG
Seq C2 exon
ATGGGAAATTACGAGCGCAGCGACCAGCCCGGGTGGGATCGGCGGCGCGGCGGCAGTGAGCGCCAGGGGAAGCGGAGATCGCACAGCGGTGCCCAGGAGAGCAGGCACTACAGGCATGAGATGGCCAAGCGGCCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028438:ENSGALT00000044904:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTCTCTTAGCGGGAGAGC
R:
GCTGCGCTCGTAATTTCCCAT
Band lengths:
351-697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]