HsaINT0084316 @ hg19
Intron Retention
Gene
ENSG00000055118 | KCNH2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:HGNC Symbol;Acc:6251]
Coordinates
chr7:150643965-150644602:-
Coord C1 exon
chr7:150644416-150644602
Coord A exon
chr7:150644143-150644415
Coord C2 exon
chr7:150643965-150644142
Length
273 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCCCCCACTTCCTGCCCCAGGCT
3' ss Score
7.68
Exon sequences
Seq C1 exon
GCGCCTTCTCAGGAGTGTCCAACATTTTCAGCTTCTGGGGGGACAGTCGGGGCCGCCAGTACCAGGAGCTCCCTCGATGCCCCGCCCCCACCCCCAGCCTCCTCAACATCCCCCTCTCCAGCCCGGGTCGGCGGCCCCGGGGCGACGTGGAGAGCAGGCTGGATGCCCTCCAGCGCCAGCTCAACAG
Seq A exon
GTGAGGGAGTGCAGGTGGGGTGGGGGGGCACGCCCTGGAGTCTGGTCCAGGTCCTGGCGGTGTTGTCTGGTAGAGGGAGAGGGCCTGTCTGTGTGTGCAGCAGCTGGATCCCCTTCTTCCATTCCTAGCCCAGCTGGGGGCTGCCACACCTCTAGCGCGGAGGGCCTGGGTTGACAGGCTGCCCCTCCCCCCTCCCCTTCCCCTTCCCCACTCCCGGTGGAGGCTGTCACTGGTGTCCCCACTTCTCTGAGCATCCCCCACTTCCTGCCCCAG
Seq C2 exon
GCTGGAGACCCGGCTGAGTGCAGACATGGCCACTGTCCTGCAGCTGCTACAGAGGCAGATGACGCTGGTCCCGCCCGCCTACAGTGCTGTGACCACCCCGGGGCCTGGCCCCACTTCCACATCCCCGCTGTTGCCCGTCAGCCCCCTCCCCACCCTCACCTTGGACTCGCTTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000055118-KCNH2:NM_172057:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.667
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACCAGGAGCTCCCTCGATG
R:
GAAAGCGAGTCCAAGGTGAGG
Band lengths:
303-576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)