HsaINT0084360 @ hg19
Intron Retention
Gene
ENSG00000173826 | KCNH6
Description
potassium voltage-gated channel, subfamily H (eag-related), member 6 [Source:HGNC Symbol;Acc:18862]
Coordinates
chr17:61600695-61601730:+
Coord C1 exon
chr17:61600695-61600850
Coord A exon
chr17:61600851-61601499
Coord C2 exon
chr17:61601500-61601730
Length
649 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CCTCCCACCTCCCACCCCAGGTC
3' ss Score
9.23
Exon sequences
Seq C1 exon
ACGCTGCTGAGCCCGAGGACAGACGGAGACGCCGGGAGCCAGTGGCGCCTGTGGCTCCGGGCAGGGGCCGCGGCCGAAAGATGCCGGTCCGCAGGGGCCACGTCGCTCCCCAAAACACTTACCTGGACACCATCATCCGCAAGTTCGAGGGCCAAA
Seq A exon
GTGAGTGTGTGTATGTTGGGGCGGGGGGACGATCTGGAGTCCTGGTTCCGTGAAAGGGGGGGCTGGACCCCTTTACTAACTTCTAACCGGGCAAGGTGGTGAGTGCCGGGTGCTGAATGAAAAATCCTTCTTTTGATGTCCCCAACACCTTCTCCTCCAGGGGGACCCGCTTGCCTTAAATGCTGTCCTCTTTTCTGGAACACAAGGAGCAGCGTGCAGGCCTTCCCTCCCTACTGCCAGCTGTTTCCTTGGTGCCCCAAGTTCGAACCTCCCCTTCCAGCCACTGCCTGCCCCCTCATCCGCGTCCTCCAGAGGCTTCTCTGAGTCCTTCTTTTCCTTCCTTTTCATATCCTGGTTCTGGTCTTCCCAGGAGCTTTCCCAGGCCTGACCCCCATCTGGTCACATCCCTGCCTCCCTTCCCCACACTTTTCCTGTTTCCAGGAGGCCTTGGGCCTTCCTTCCACCTCAAGACCCTCACTGCCCTAGTCTTCCCACAATCCCCAGGCCTGACTCCCTCCCTCATTCCGGTCACTGCCCTGCTCCTCTGCCTAAATTCCCCTTACTGCCACCAAGAGTCCTTATGATCTTTCCCTCCCAGCCGCTGGATCCTGGCTCCCATGGACTTTTTGCCTCCCACCTCCCACCCCAG
Seq C2 exon
GTCGGAAGTTCCTGATTGCCAATGCTCAGATGGAGAACTGCGCCATCATTTACTGCAACGACGGCTTCTGCGAACTCTTCGGCTACTCCCGAGTGGAGGTGATGCAGCAACCCTGCACCTGCGACTTCCTCACAGGCCCCAACACACCAAGCAGCGCCGTGTCCCGCCTAGCGCAGGCCCTGCTGGGGGCTGAGGAGTGCAAGGTGGACATCCTCTACTACCGCAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173826-KCNH6:NM_030779:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF101704=C6_DPF=FE(50.8=100),PF082777=PAN_3=PU(85.7=72.7),PF131881=PAS_8=FE(65.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCCCGAGGACAGACG
R:
GTCCACCTTGCACTCCTCAG
Band lengths:
358-1007
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)