HsaALTA0004463-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000107147 | KCNT1
Description
potassium channel, subfamily T, member 1 [Source:HGNC Symbol;Acc:18865]
Coordinates
chr9:138662703-138664795:+
Coord C1 exon
chr9:138662703-138662941
Coord A exon
chr9:138664561-138664566
Coord C2 exon
chr9:138664567-138664795
Length
6 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
AGCACAGGGCTCTCTTCCAGGGA
3' ss Score
4.18
Exon sequences
Seq C1 exon
GTATGGCGTGTGCCTCATCGGGCTGAAGCGGGAGGACAACAAGAGCATCCTGCTGAACCCGGGGCCCCGGCACATCCTGGCCGCCTCTGACACCTGCTTCTACATCAACATCACCAAGGAGGAGAACTCGGCCTTCATCTTCAAGCAGGAGGAGAAGCGGAAGAAGAGGGCCTTCTCGGGGCAGGGGCTGCACGAGGGTCCGGCCCGCCTGCCCGTGCACAGCATCATCGCCTCCATGG
Seq A exon
GGACAG
Seq C2 exon
TGGCCATGGACCTGCAGGGCACAGAGCACCGGCCTACGCAGAGCGGCGGTGGGGGCGGGGGCAGCAAGCTGGCACTGCCCACGGAGAACGGCTCGGGCAGCCGGCGGCCCAGCATCGCGCCCGTCCTGGAACTGGCCGACAGCTCAGCCCTGCTGCCCTGCGACCTGCTGAGCGACCAGTCGGAGGATGAGGTGACGCCGTCGGACGACGAGGGGCTCTCCGTGGTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107147-22-27,22-26-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.602
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=PD(8.5=11.1)
A:
NA
C2:
NO
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGAAGCGGAAGAAGAGGG
R:
CCTGCAGGTCCATGGCCA
Band lengths:
108-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)