HsaINT0084333 @ hg19
Intron Retention
Gene
ENSG00000089558 | KCNH4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:HGNC Symbol;Acc:6253]
Coordinates
chr17:40316148-40317711:-
Coord C1 exon
chr17:40317467-40317711
Coord A exon
chr17:40316187-40317466
Coord C2 exon
chr17:40316148-40316186
Length
1280 bp
Sequences
Splice sites
5' ss Seq
AGTGTATGT
5' ss Score
4.8
3' ss Seq
ACTCTCCTATGTCCCCACAGGGC
3' ss Score
12.76
Exon sequences
Seq C1 exon
GGAAGGGGGACCTGATTGGAGCAGATATCCCTGAGCCGGGGCAGGAGCCTGGGTTGGGAGCAGACCCAAACTTCGTGCTAAAGACCAGTGCTGATGTGAAAGCTCTGACCTACTGTGGCCTGCAGCAGCTGAGCAGCCGAGGGCTGGCTGAGGTCCTGAGGCTCTATCCTGAGTATGGGGCTGCCTTCCGGGCTGGCCTGCCCCGGGACCTCACCTTCAACCTGCGCCAGGGCTCTGACACCAGT
Seq A exon
GTATGTACACCCCTGATGACCGCCATCCTTCCAGAGTCCCTTCCTCCAAAGCAGACCTCCCCAGCCTGAGAGTCCCATGAACCTCCCTCCACCCTAAAAACACATGCCTGAAGCCCAGGCACCCTCCTCCATTGCCCCTTACCTGCTTCATACCTTCCAACCCCGCTGACACTACACTGGCCATCACCCAGGCCCCTGGCCGTCTCTCATCGCCATCTACTCCCAACTCTACTGCCCCATCTCCTGCTGACCACCCCTCAGCCCCACCCCAGACTCCTGACTCCTTCAAAGGACCCTCCCTTTGTTTTTGTTTTTGTTTTTTTGGGTTTTGTTTTTTTTTTTTGAGACGAAGTCTTACTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATCTTGGCTCATCACAACCTCTGCCTCCTGGGTTGGAGCAATTCTCCTGCCTCAGCCTTCCGAGTAGCTGGGATTACAGGTGTGTACCACCACACCCTGCTAATTTTTGTATTTTTAGTAGAGATAGCGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACAATGCCCGGTCTTGTTTTCGTTTTTGTTTTTTTTTGAGACAGTCTGGCTCTGTCACCCAGCCTGGAGTGTAGTGGCGCCATCTCAGCTCACTGCAACCTCCGCCTCCCGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGATGACAGGCATGCATGCCATGCCTGGCTAATTTTTATATTTTTAGTAGAGATGGGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGCCAGGCTCCTCCCTTTAGAAACAACCCCCTCATGTGCTCCTCTTTCAAGCCCCTCTCTGGACGGGGCATCATGCCCTGGGGGTTCCTCTTCTCTCACCAAATGTCTCCTGAGTCCACTTTGTTTTAGGCTCTGGGCCAGGCCTGTACATTACACCTTGGGCCTTGGTCTTTTGCTGCTTTTCAGTCTCACTTTGATATGCAGTGTTTGTTTGAGTTAGGGTTATAGTTTCTGACTCAGCTCCACAAAAGACTCCACATTCTCAACCCCATAACACTGTTGGGTGGGACAGGGAGGGTCTGCGCTATGGCCGCGGGAAGGCAGGAATCAGCTTGAACTCTCCTATGTCCCCACAG
Seq C2 exon
GGCCTCAGCCGCTTTTCCCGATCCCCTCGCCTCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089558-KCNH4:NM_012285:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.923
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(58.2=69.5)
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:
GGGACCTGATTGGAGCAGATA
R:
CTGGGAGAGGCGAGGGGAT
Band lengths:
278-1558
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)