HsaINT0084321 @ hg19
Intron Retention
Gene
ENSG00000135519 | KCNH3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:HGNC Symbol;Acc:6252]
Coordinates
chr12:49950153-49951042:+
Coord C1 exon
chr12:49950153-49950259
Coord A exon
chr12:49950260-49950965
Coord C2 exon
chr12:49950966-49951042
Length
706 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CCCCATCCTACTACCCACAGAGA
3' ss Score
7.43
Exon sequences
Seq C1 exon
GGTAGTAGATGGCATTGAAGACGGCTGTGGCTCGGACCAGCCCAAGTTCTCTTTCCGCGTGGGCCAGTCTGGCCCGGAATGTAGCAGCAGCCCCTCCCCTGGACCAG
Seq A exon
GTACCAGGGCCCCGGGATGGTCTAGGTTGGTGGGGCAGCCCCTTTGCCTTGTGAACCTCAAGCACTGTTGACCTCTGAGCCTTCAATGTTAGAGAAACTGGCAGACTGCCTGGAGGCCGTCTCACCCCACTACCCCTTGGTGTCGTGCGGGCAGGGGAGTTTGGTGGTGAAGACCAGCACTTTAATTTCGACGCAGCCAGGAACTGGGTTTATATCCTTGCTCTGTCAGCTTTCTAGCAGTGTGAATTTGGCTTCTCTGGCCCCAGCTTCCTGTCTGTAAAAAAATGGGTTGATGTTTACGTTATATAATGTAACTGAAAGCCTTAGCCCAATCTCTGGCTAACTGAAGGGATAGAGGGCTGGGGATCCAGGGGTGAAAATGTCTCCAGGCCAGGGAAGTGGACAAGGTAATGAGCTCCTAGGAATGTCCATTTGCCTGGAGGACAGAGCAAGGGACAGGCACAAAGAACAACTTTTTGAGGGGAAGGAGAGCACTAGGCAGTGTGGCTGAGGGCTGCTGGGTGGTGTTTTCCCTGCCCCTGGAAGTTTGGGCAAAATTCAGCACCTTGGGCAAGGCCAGAAGAGATGATCCTAGGAGTCAGGTCCTACCAGGTCAATGTGCTCTAACTGGGGCAAGGCCTAGACCCCCAAATTGCCTATCTCCTCTTACCAGCCCCAGCTGATAACCCCATCCTACTACCCACAG
Seq C2 exon
AGAGCGGCCTGCTCACTGTTCCCCATGGGCCCAGCGAGGCAAGGAACACAGACACACTGGACAAGCTTCGGCAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135519-KCNH3:NM_012284:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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:
GGTAGTAGATGGCATTGAAGACGG
R:
CCTGCCGAAGCTTGTCCAG
Band lengths:
182-888
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)