HsaINT0084313 @ hg19
Intron Retention
Gene
ENSG00000055118 | KCNH2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:HGNC Symbol;Acc:6251]
Coordinates
chr7:150645532-150646137:-
Coord C1 exon
chr7:150645944-150646137
Coord A exon
chr7:150645632-150645943
Coord C2 exon
chr7:150645532-150645631
Length
312 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GATACTGATTTTGGTTCCAGACC
3' ss Score
5.87
Exon sequences
Seq C1 exon
GGAAGAATGACATCTTTGGGGAGCCTCTGAACCTGTATGCAAGGCCTGGCAAGTCGAACGGGGATGTGCGGGCCCTCACCTACTGTGACCTACACAAGATCCATCGGGACGACCTGCTGGAGGTGCTGGACATGTACCCTGAGTTCTCCGACCACTTCTGGTCCAGCCTGGAGATCACCTTCAACCTGCGAGAT
Seq A exon
GTGAGTTGGCTGCCCTGAGCTGGACCCCATCCTCCTGCTTCCAGCTGTGTGGCTGCCCCTTTGCTGTGTGACATTGAATGTGATGCTTCTCTGTCTCAGTTTCCCTGTCTGTCAAATGGTATCATAGAGCAGCCTACAAAAGTCCCAAACTCAGTCTTTGCCTGGGGCAAAATCACATTGGGGGCAGGGAAGGGTTTTCCCAGAGCTGGGGCGCCCAGCCCTACTTTTTCTGTGTTAAGGAGGGAGCTTGGGGCCTGACCCCGGTGGGGCAGGAGAGCACTGAAAGGGCCCTGATACTGATTTTGGTTCCAG
Seq C2 exon
ACCAACATGATCCCGGGCTCCCCCGGCAGTACGGAGTTAGAGGGTGGCTTCAGTCGGCAACGCAAGCGCAAGTTGTCCTTCCGCAGGCGCACGGACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000055118-KCNH2:NM_172057:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(53.4=72.3)
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:
AAGAATGACATCTTTGGGGAGCC
R:
CTGCGGAAGGACAACTTGC
Band lengths:
278-590
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)