GgaINT1009608 @ galGal4
Intron Retention
Gene
ENSGALG00000028438 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr7:10802725-10804181:-
Coord C1 exon
chr7:10803935-10804181
Coord A exon
chr7:10802816-10803934
Coord C2 exon
chr7:10802725-10802815
Length
1119 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGTT
5' ss Score
2.16
3' ss Seq
CCATCTTGGTGCCGTTCCAGAGG
3' ss Score
5.5
Exon sequences
Seq C1 exon
CAAATGTTCGGAGGCCAAATCCGTAAATGACCGGGAGCACCACAAGCGGAGACGCTATGTGGAGGAGTACAGGAGTGAGCACACACAGGGCTATGACAGCAGGCAACAACACCGCGAGCACGACAAGAGTGCCCACCACCACCACCACCACCACAGCAGCAGGTCCTTGGGCCGCAGCGGGAAGGGCGGAGACAAGCGGTGGTACAGGACGCAGCACAGCGCCGGCCACCACCACCATCACTCACAG
Seq A exon
GTGGTTTGTCCAGTTATAACTGAGGGGGGTTGTGTCTTAGGGAGACGAGTTCCCAGCTGGGCAGCAGTAATTGAGGGGGTGTGGGGAAGTCTGTGAATGATGTTAGTAGATTAGCCCTTTTGTTCGTATTGATTGATAATTCTTTTTGTTAGTTCATGGTTTTTTTGTTTTTTGTTTGTTTTTTTTGTTTGTTTGTTTTTAATCTTTAGTGAGAGCATATACTGTGTAGTTATGCTTGTAACACCATGGAATATAGTCTTGCCTTTTGTTCATTGGCTGTAATTTGAGCCAATTAACGAGTAGAAACCATCAAATGGAATATTTGTGCAGGCATCACTTTCATGCCTTAAAAATGTGTTATGACATCACATATTTACTTCTGCCCTACTCAAAAGTCCAAATGCAAACATTCAGACTTGCTTTTGAGTACGTATCACTGAAATAGCAAGGAGATAATGTTAGGTTTCCACACGTTTTTTGGTACTGATTAAATAAAATGCATTAGGTCTCAATGCAATCTGTAGAATCAGATAAGTGCAGTGACTGTCCACCAGCAGGGTGGTTTTTCTGATCGTTATCATATATTTAACTGTTAAAAAAGCTGAAGATAGGATTTATAGTTTAATATCTTCAGCGGAGACAGCCTAAAGAAAATATATATGGTATTTTTGTGATTTAAAGAAAAACTGTTTCTGAATATTCAAAGCAATGATTTTAAACTCAATTACTTAAGAGGGGTATTTTCATTTAGCTGTAAGGCTGTTTTATATAATGTAATTATTAAATCCTTTTGCTGTAAGAAATAATGGCACTGAAAACCTAAATGAAAATTCAGTGAACCAATCTTTTTAAAGAAAAAAACAATGTTGTATTTTTTTATTGCCTTGCCACTTTGAGTATCTCATCTGAAAATCTGTTCCTTGCCATGTTTTTCTCCTGTAACATAAACTATGTGCCCTGTGAATTTCCGGGGACTGAATTTGAAATTGCTCCTGCCAACCGTTTGTGGCCTGGCGTGTATCTGAATGCCCGAATATCTCCCTGCTGAATGAATTTCGTATTCTGACCTGAATTGACTCGGGTTTATTGATTGGCCTGACCATCTTGGTGCCGTTCCAG
Seq C2 exon
AGGAGCCATCGAAGGAAAAGATCCAGGAGTGTAGAGGATGATGAGGAGGGTCACCTGATCTGTCAGAGTGGAGACGTACTAAGTGCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028438:ENSGALT00000044904:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.516
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAATGTTCGGAGGCCAAATCC
R:
TGCACTTAGTACGTCTCCACTCT
Band lengths:
334-1453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]