BtaINT0039381 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005408 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr2:89921738-89922488:-
Coord C1 exon
chr2:89922359-89922488
Coord A exon
chr2:89921821-89922358
Coord C2 exon
chr2:89921738-89921820
Length
538 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CAGTTTGCTTTTCTTTGCAGCTT
3' ss Score
8.93
Exon sequences
Seq C1 exon
AAACGTGATGAACGTACTTTAATAAATCCAGATATTAAAGTTGTAGACTTCGGAAGTGCAACATATGATGATGAACATCACAGTACATTGGTATCTACAAGACATTATAGGGCACCTGAAGTTATATTAG
Seq A exon
GTAAGAATTTCTTAACTATGCTTTGAGACTTGTTTTGAAGCCAACTTTAAAATTTACTGTTCTGGGTGTTCGTGGGACTCTTTCCATTTTAGGGTTAATATAATAAAACACATTAAGGATTTTAAATTTACTCCAAATAGTCAACTCTTTTAAGACTTTGAGAGATTTGTTAATTCTAATAGATTTCAGTTTTCACATTTATAATACATGATGGGATTTTTAAACATAATAATTTAGTGCCTGTTATATTCCATACAGTTTATGTTAGTGTTTGCATGGTATAGCTTGCTCCCATTTTACTAGCTAATAAATGGAGGCTTTGACTAAAATTTTCTTCCCCAAGTCTGTTCCAAAAAAGTAAGCCTGATTTAGGGCTTGAAACCAGATGTCTCCAGAGCCGGGATTCTTAACATACTATGCTATTGTGTTATGTTTAAGCTTAGATTAAGTGATTGCTTTAGGATCTTTCCAGCTCAAATATCAAAGACAGTAAGAAATATTGAGAATTTTTTCATCAACAGTTTGCTTTTCTTTGCAG
Seq C2 exon
CTTTAGGATGGTCCCAGCCATGTGATGTCTGGAGTATAGGATGTATTCTTATTGAATATTACCTTGGATTTACAGTATTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005408:ENSBTAT00000007115:9
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=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.5=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]