HsaINT0084324 @ hg19
Intron Retention
Gene
ENSG00000135519 | KCNH3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:HGNC Symbol;Acc:6252]
Coordinates
chr12:49935413-49936622:+
Coord C1 exon
chr12:49935413-49935547
Coord A exon
chr12:49935548-49936488
Coord C2 exon
chr12:49936489-49936622
Length
941 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
GGGCCCCTCTTCTTTCGCAGGTG
3' ss Score
10.44
Exon sequences
Seq C1 exon
GGCTCCCGTTCTGGTGTCTCCTGGATGTGATACCCATAAAGAATGAGAAAGGGGAGGTGGCTCTCTTCCTAGTCTCTCACAAGGACATCAGCGAAACCAAGAACCGAGGGGGCCCCGACAGATGGAAGGAGACAG
Seq A exon
GTAGGTGCATGTAGGTGCTGTGGTCGGGGTATTGGGTGCCGCAGGCCCGGGCGGGGCCTTGGCACCCAGTCTGAGTACGGGGGTCCCCCATGCACCTGCATTCATTTCACTCCCACTCAGGCTGCCTGAGAGGCCTGTGCTGCTCTCATCTCCACATTCCTCGGTATGGGAATATTTTTTCCAAATAGACAGATTGAGACAAAGTTGGAGTTTTTAAGTCAACTTTATTAAGAAACTGAAAGCAAACAAACCCAATTGTACCTGTGAAGCAGGTACTTTCTGACCAGTTAATAAGGTTGAGCACAGACCCACCAGGTTCCTCTTTCCTACAGCAAACCTGACTGGGGGTGGAGCTCTGGGCAAAGCCTGCTTTTAAGTTCTTCGAGTCTTTCCCCTCTTGTGTCCTCCAAGGCTGGGGCAGGCCTTTGGGCAGGTTACAAAGCTGTCAAGGCCTCTTTGCCATTTGGGGATGCTGGGGGTACTCTCCACTCCCACTCGCGTACTCCCAGTGCTGGGTCTGCCTCTCCATGATGTCAGCCTTCATTGTCACCCTCTGGTCCCTGCACTAGCTCCTGGGCTCCTGCTGTAAGTTCCCACACCTCTGCTGACGGCCTCCTGCTAGTTCTCCACCCTGGCCCTGTGAGGTACCTCCTCGCTTCCTGTCCCAGGCCTTTCCCCGTAGAGATCCTCTGGTCCAAACCTCCTCTTCCTGGAAGCAGACCCCAGAGGTAGTGTCTGTAAACACTCCTAGGACTGCCCATTGCTGGGCTGGGCAAGTGAACCCAGGAAGTGAGGAATACCTGAGCCCCCAACTCTAAACATTCTAAGTGGTCAATGAGCCAGACCAGTCCATGGGCCAGCAACTGTGTCCTACACCTGACCCGGAGCTAGGGTGTGTGGGCACACACCCATCATCTTCATGGGCCCCTCTTCTTTCGCAG
Seq C2 exon
GTGGTGGCCGGCGCCGATATGGCCGGGCACGATCCAAAGGCTTCAATGCCAACCGGCGGCGGAGCCGGGCCGTGCTCTACCACCTGTCCGGGCACCTGCAGAAGCAGCCCAAGGGCAAGCACAAGCTCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135519-KCNH3:NM_012284:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon 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(38.6=73.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTTCTGGTGTCTCCTGGAT
R:
CTTGTGCTTGCCCTTGGGC
Band lengths:
255-1196
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)