HsaALTD0003392-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000143473 | KCNH1
Description
potassium voltage-gated channel, subfamily H (eag-related), member 1 [Source:HGNC Symbol;Acc:6250]
Coordinates
chr1:211092982-211192598:-
Coord C1 exon
chr1:211192206-211192598
Coord A exon
chr1:211192125-211192205
Coord C2 exon
chr1:211092982-211093411
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
CTGTGTTCCTCTTCTCCCAGGGC
3' ss Score
10.36
Exon sequences
Seq C1 exon
GTCCTACAGCTGGGCTCAGACATCCTTCCCCAGTACAAGCAAGAGGCACCAAAGACTCCCCCTCACATCATCTTACATTATTGTGTTTTTAAGACCACGTGGGATTGGATCATCTTGATCTTGACCTTCTATACAGCCATCTTGGTCCCTTATAATGTCTCCTTCAAAACCAGGCAGAATAATGTGGCCTGGCTGGTTGTTGATAGCATCGTGGATGTTATCTTTTTGGTGGACATTGTGCTCAATTTTCATACCACCTTTGTTGGACCAGCAGGGGAGGTGATTTCTGACCCCAAACTTATCCGCATGAACTACCTGAAGACGTGGTTTGTGATTGACCTTCTGTCCTGTTTGCCATATGATGTCATCAACGCTTTTGAGAACGTGGATGAG
Seq A exon
GTTAGTGCCTTTATGGGTGATCCAGGGAAGATTGGTTTTGCTGATCAGATTCCACCACCACTGGAGGGGAGAGAGAGTCAG
Seq C2 exon
GGCATCAGCAGCCTGTTCAGCTCTCTAAAAGTTGTCCGGCTGCTCCGTCTTGGGCGAGTGGCCCGTAAGCTGGACCACTACATTGAATATGGAGCTGCTGTGCTGGTCCTGCTGGTGTGTGTGTTTGGGCTGGCTGCACACTGGATGGCCTGCATCTGGTACAGCATTGGGGACTATGAGATCTTTGACGAGGACACCAAGACAATCCGCAACAACAGCTGGCTGTACCAACTAGCGATGGACATTGGCACCCCTTACCAGTTTAATGGGTCTGGCTCAGGGAAGTGGGAAGGTGGTCCCAGCAAGAATTCTGTCTACATCTCCTCGTTGTATTTCACAATGACCAGCCTCACCAGTGTGGGCTTTGGGAACATCGCCCCATCCACAGACATTGAGAAGATCTTTGCAGTGGCCATCATGATGATTGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143473-5-5,6-5-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084125=Ion_trans_N=WD(100=45.0),PF0052026=Ion_trans=PU(29.5=49.6)
A:
NA
C2:
PF0052026=Ion_trans=FE(57.9=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
AGCAGGGGAGGTGATTTCTGA
R:
GGAGCAGCCGGACAACTTTTA
Band lengths:
170-251
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)