GgaINT1009611 @ galGal4
Intron Retention
Gene
ENSGALG00000028438 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr7:10799723-10800803:-
Coord C1 exon
chr7:10800687-10800803
Coord A exon
chr7:10799890-10800686
Coord C2 exon
chr7:10799723-10799889
Length
797 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
TGTTTTCCTGCTTTTTACAGTCG
3' ss Score
9.2
Exon sequences
Seq C1 exon
GGGAGGTAGACATGTAGCTGTGAAAATAGTAAAAAATGTGGATAGGTACTCTGAAGCAGCACGTTCAGAAGTACAAGTACTGGAACATTTAAATGCATCAGACCCCAGCAATACATA
Seq A exon
GTAAGTACCTTACTTTGTCTTTAAGATTGCTCTGATGTCACTTTCTGTCACAGAACACCAGTGTTCTTGAAAAGAAAAACAGAACTAGGATGCACCAAACATGACTTGCAGATGAAATACTACAAACTCAAAATGACTACATAATAGCTTTTGAGTAATTTTCCTTCTCGGTCATCTCAGGTTACTGAGTGCTGGAGGGCCTGTGCTGTTTCTTAGAAGGACTGTATGCGTGCTCCTCCATGTACAGCTGTACCCCAGCTCCTCAAAGGGCACAACCTGTCCTGCACTGCAGGGCTGGGCAGGGTCTGGCTGTTACTTCTGGATTGGATTTCTTCCTCAGGCCTGTGAAGCTGACCTGGGAGTCTACTGTAGCAAAAACTGTATTAATGTGTGGGCAGATTAGCAACAAGGAAGTACTATCTTCCCTATAATGCTCTTGTCATAAGTCTTAGAAAAGCTTAATTAATTCTCCCAGATCTGTTTGTTTCTTTTATACTGTTACACAGGGTCTCAGTGCTTCCAGCAGGTTTCTTGTTGCTTTTGGCTTGGCATTGCCTTCTGTTAATGGTCTGCTTGTTTTTTATTTCCTGAGCTGACTGGAGCTTCTCACCTGGAAGCACCATTCCTTAGGGTTTCTGTTCGTTTTGACGCTCTGCTGCTTGAAGCAGATGAGCTATATGCTGGGGAATAGTAGCCCTCTAAGGGGTTATTTCCAATAGTTGTCCGTATCGTGTCACGTACATCTCTCAGCATTATATAACTTAATGTTGAAATTTGTGTTTTCCTGCTTTTTACAG
Seq C2 exon
TCGCTGTGTCCAAATGTTGGAATGGTTTGAGCATCACGGCCATGTCTGCATTGTTTTTGAGCTGCTGGGACTCAGTACCTATGACTTCATTAAAGAGAACGGCTTTTTGCCATTTCGGTTGGACCACATTAGACAGATGGCGTATCAGATTTGCAAATCTGTGAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028438:ENSGALT00000044904:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=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:
GGGAGGTAGACATGTAGCTGTG
R:
TGCAAATCTGATACGCCATCTGT
Band lengths:
272-1069
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]