HsaINT0084317 @ hg38
Intron Retention
Gene
ENSG00000135519 | KCNH3
Description
potassium voltage-gated channel subfamily H member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr12:49539157-49541132:+
Coord C1 exon
chr12:49539157-49539492
Coord A exon
chr12:49539493-49540898
Coord C2 exon
chr12:49540899-49541132
Length
1406 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
TGAGAAGTGCTCTCTTGCAGACA
3' ss Score
5.53
Exon sequences
Seq C1 exon
GGCCGCGGGGCCTGGAGCCCGGGATTTGTGGGCGGCGAGGGCGCGAGGGGCCGCGCGCCATGCTCCGGGCCCCGACGGCGCGGACGCCCCCTCGCGCGCCAGCGTCCGGCGCGACCCCGGATCCCGGTCTGCGCATTGCCCCCCGACGGCTGCGCTAGGGAGCGCGGGGCCCGGCGGGGGGCGGCCGAGCTGGGCGCCCTCCCCCGGCGCGGAGTCCCCGCACCCCGGAGGGATGGGGCGGGCAGCCGCGGGCGCCTAAGATGCCGGCCATGCGGGGCCTCCTGGCGCCGCAGAACACCTTCCTGGACACCATCGCTACGCGCTTCGACGGCACGC
Seq A exon
GTGAGTCCGACCCTCGCCCACTTGCACCCGGGCCGCCGGACCCTCGCCAGGGCTCCCGCCTTCCCCGAACCCCCAGCAGCCCAGCTTGGCGCCAGCCTATTCTCACCCTCTCCTCCCTACCCGCCCCTCTTGAGGCTGGGGCCATCGTCTCCTGCTAGGCGCTGTTTCCCCGAAGGTTCGAAGGTTCGGGGTCAACACTGCTTCAGGCGAGGCAACAGGGCCAGAAGTCCCTGGGTGTGGGTCCTGGGATGCTCTCTGTTAGCCGGGTCTCGAACCCGAACCTAGTCAGTCTGACCCATCCCACCCCTGCGTCTGGCGCTGTCGCAGCAACTACCCTCGGACTGGTGGGGTAAGGCGAGGCGGGTGAACAGTGCTCAGGGACAGCTGAGAGGGCTCAAAACACAGATTTAGAAAAGAGATTTGCAAACGGAGATAAGAGTAGGCGGCACTCGGGAGAGCACCGTGTGTCCAAGCCCCGTGTCTCATAGCCTGAACCCCCTAGACTTGGGGAGGCCATCTAGCCCCAAGAAGATGGTTTGGGGACTCCCATCAGGACTGGGGAAGTTTGGAGAAGGCGCCCCGAGCTCTGGATCCCCGGTTCTGGGGGCTCTGAGCACAGGGGAAGTGATGAAAGCCCCTCCCTCCTCCTCTCCCTCACATCCCCCGTGGGGCTTCCCAGCTCTCTGCCTAGGTCCTCCTTGGTCTCCGGTTCCTGATAGGGGGTGGGAGCCCAGCCCTGCGCTCTCCCCACTCCGGGCTCCTCCATCTGCTTTGCCAGTGTGCTTGGCTCCTGCAGCCTGCTGATTCAGTGCCCCCCACTCCCCAATACATTCCTGGCTCCTGGCTCCCGTGCTCAGTCACCATTCTTACACCCCCATTCTTGATCACATTCACTAATTCCTGAGCCAGGTCAGGCAGCTAGGGCTAAAACACAGACAGCAGGATGTATGGTGGTCTGGGGTTGCCTCCAGTCTAGGTGTGTCTCAGTGGGAGAAGCCAGACAGCCAACCTGGGTACCTGGCTAGTGGGTGAGCCTGGCAGAAGTAGAGGTGGGGCTGAGGCTGGCCCAGAGCTGGCAGGGCAGTCCTCATTAGGGATTCCCCAATCCCAGCCCTTACCCCACATTGCTCAGGACACCCTCCAGAAGGCACAGTGCCCGCACAGCGCTTCATTCACCGACCTCAGTTCACATGTGCTGATCCTTGAATGTACTCACACCTGCTGCAGGGCACTGACAAACAGGTGACACACACTGATTGCTATTCATAAACAGCCCTGCCTTAACACACGCAGGATTCCTGGGGTTTGGAAAACCCACTCTTTGGTTGCAGGCATTTGAGAAAGGAGGGGTGGTAGGCCTCCTGCCCCTTCACCCCACGCCTCCTCTGAGAAGTGCTCTCTTGCAG
Seq C2 exon
ACAGTAACTTCGTGCTGGGCAACGCCCAGGTGGCGGGGCTCTTCCCCGTGGTCTACTGCTCTGATGGCTTCTGTGACCTCACGGGCTTCTCCCGGGCTGAGGTCATGCAGCGGGGCTGTGCCTGCTCCTTCCTTTATGGGCCAGACACCAGTGAGCTCGTCCGCCAACAGATCCGCAAGGCCCTGGACGAGCACAAGGAGTTCAAGGCTGAGCTGATCCTGTACCGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135519:ENST00000257981:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.009
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134261=PAS_9=PU(70.4=96.2),PF051168=S6PP=PU(61.5=70.9)
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:
CTGGAGCCCGGGATTTGTG
R:
TTGCCCAGCACGAAGTTACTG
Band lengths:
347-1753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development