BtaALTD0011351-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000001195 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr19:42924752-42925468:-
Coord C1 exon
chr19:42925319-42925468
Coord A exon
chr19:42925116-42925318
Coord C2 exon
chr19:42924752-42924858
Length
203 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
GACCACTGCCTCCATCCCAGGAT
3' ss Score
5.65
Exon sequences
Seq C1 exon
CCCCGCTCGGATAGCCTGGGCTCCTCCTCAGACAAGACCCAGCCATCCGTCACAGAGGCCGAGGCTGGGGCCGAGCCTGGCGGTGGTCCCAGGCCCCGGCGGCCCATCCTGCTGCCCAACCTCAGTCCAGCGCGGCCCCGGGGCTCCCTG
Seq A exon
GTCAGCCTCTTGGGGGAGGAGCTGCCCCCTTTCTCAGCCCTTGTCTCCTCTCCTTCCCTGTCCCCAGCCCCTTCCCCTGCCCTGGCTGGCCGGGGCCACAGCCCCTCCCCTCATGGCCCCCCCAGGGGCTCTGCTGCCTGGAAGCCCCCCCAGCTTCTCATTCCCCCACTGGGAACCTTTGGACCTCCGGACCTCAGTCCCCG
Seq C2 exon
GATAGTGGATGGCATTGAGGACTCTGGCAGCACGGCAGAGGCCACTACGTTCCGGTTCAGCAGGAGGCCTGAGCACCCTAGATCTCGCTCACAGGCCCTTCCTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001195-15-17,16-17-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.907 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping 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:
CTGGGCTCCTCCTCAGACAAG
R:
GAAGGGCCTGTGAGCGAGATC
Band lengths:
236-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development