HsaINT0084326 @ hg19
Intron Retention
Gene
ENSG00000135519 | KCNH3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:HGNC Symbol;Acc:6252]
Coordinates
chr12:49937058-49937855:+
Coord C1 exon
chr12:49937058-49937301
Coord A exon
chr12:49937302-49937697
Coord C2 exon
chr12:49937698-49937855
Length
396 bp
Sequences
Splice sites
5' ss Seq
TTGGTGCGT
5' ss Score
6.18
3' ss Seq
CCCACCCGGATTCCCCACAGACA
3' ss Score
8.7
Exon sequences
Seq C1 exon
GGGGTGTTTGGGGAGAAACCAAACTTGCCTGAGTACAAAGTAGCCGCCATCCGGAAGTCGCCCTTCATCCTGTTGCACTGTGGGGCACTGAGAGCCACCTGGGATGGCTTCATCCTGCTCGCCACACTCTATGTGGCTGTCACTGTGCCCTACAGCGTGTGTGTGAGCACAGCACGGGAGCCCAGTGCCGCCCGCGGCCCGCCCAGCGTCTGTGACCTGGCCGTGGAGGTCCTCTTCATCCTTG
Seq A exon
GTGCGTGCACTCTGCCCCTTCCGCCCCACCCTTTGCTGGCGCCCTGGGGCTTTGCTGGGGATAGTCCACGTGGCTTCCAGGGTGCTACAGTGCCCCCCTCGCTCTCTCTCATTTGTAACCTGTGAGCTTTGAAATCAGACCTAGGTTCCAAACATCTGCCACTTAGAAGTTATATGACCTTGAGCTGGTCAAAGCCTCTCTGAGCCTCCATAAAATAGATTCCCCCTTTGTAAAATAGGCAAAATGATGTCTACCTGTTACAGTTACTGTGAGAACTAAGACGATGTATGGGAAGGGCCGGGGACAGTGTCAACTACTGAGAAAGTGAGCAGGTGTCCAGGCAAGAGTGGCTGCCCCCCCAGCCCCAGTGCTGACTCCCACCCGGATTCCCCACAG
Seq C2 exon
ACATTGTGCTGAATTTCCGTACCACATTCGTGTCCAAGTCGGGCCAGGTGGTGTTTGCCCCAAAGTCCATTTGCCTCCACTACGTCACCACCTGGTTCCTGCTGGATGTCATCGCAGCGCTGCCCTTTGACCTGCTACATGCCTTCAAGGTCAACGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135519-KCNH3:NM_012284:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(5.0=14.6)
A:
NA
C2:
PF0052026=Ion_trans=FE(21.8=100)
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:
CCTGAGTACAAAGTAGCCGCC
R:
CATGTAGCAGGTCAAAGGGCA
Band lengths:
358-754
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)