BtaALTA0015484-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000019277 | KCNH3
Description
potassium channel, voltage gated eag related subfamily H, member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr5:30459513-30460844:-
Coord C1 exon
chr5:30460710-30460844
Coord A exon
chr5:30459647-30459663
Coord C2 exon
chr5:30459513-30459646
Length
17 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CCCCCCGCCCTTCTCTCCAGCCC
3' ss Score
9.57
Exon sequences
Seq C1 exon
GGCTCCCGTTCTGGTGTCTCCTGGATGTGATACCCATAAAGAATGAGAAAGGGGAGGTGGCCCTCTTCCTGGTCTCTCACAAGGACATCAGTGAAACCAAGAACCGAGGGGGGCCTGACAGCTGGAAGGAGTCAG
Seq A exon
CCCTTGTTCTTTTGCAG
Seq C2 exon
GTGGTGGCCGACGCCGATATGGCCGGGCTGGATCCAAAGGTTTCAATGCCAACCGGCGACGGAGCCGGGCTGTGCTCTACCACCTGTCTGGGCACCTGCAGAAGCAGCCCAAGGGCAAGCACAAGCTCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019277-3-6,3-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.261 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PD(29.0=67.4),PF051168=S6PP=PD(38.2=73.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGACAGCTGGAAGGAGTCA
R:
CCAGACAGGTGGTAGAGCACA
Band lengths:
113-130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development