DreINT0086545 @ danRer10
Intron Retention
Gene
ENSDARG00000076027 | kif5c
Description
kinesin family member 5C [Source:ZFIN;Acc:ZDB-GENE-081105-14]
Coordinates
chr9:23392774-23392994:-
Coord C1 exon
chr9:23392946-23392994
Coord A exon
chr9:23392830-23392945
Coord C2 exon
chr9:23392774-23392829
Length
116 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
TTTGTTTCCCAATTCTAAAGTTT
3' ss Score
4.68
Exon sequences
Seq C1 exon
GTCTCTTATTTTGAAATATACCTGGACAAAATCAGAGACTTGCTTGATG
Seq A exon
GTGAGATAAAAAACAAAAAAAAACTATCACTTTTCTCATGAATGTTAAGTTTCTGTTAAAAATTCTATAAATCTGTTTTCATGCACCAAATTTCTTTTTGTTTCCCAATTCTAAAG
Seq C2 exon
TTTCAAAAACCAACCTGGCTGTACACGAGGATAAGAACAGGGTGCCCTTTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076027:ENSDART00000083567:5
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=0.000
Domain overlap (PFAM):
C1:
PF0022518=Kinesin=FE(5.1=100)
A:
NA
C2:
PF0022518=Kinesin=FE(5.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAATATACCTGGACAAAATCAGAG
R:
GGCACCCTGTTCTTATCCTCG
Band lengths:
84-200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]