HsaINT0084324 @ hg38
Intron Retention
Gene
ENSG00000135519 | KCNH3
Description
potassium voltage-gated channel subfamily H member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr12:49541630-49542839:+
Coord C1 exon
chr12:49541630-49541764
Coord A exon
chr12:49541765-49542705
Coord C2 exon
chr12:49542706-49542839
Length
941 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
GGGCCCCTCTTCTTTCGCAGGTG
3' ss Score
10.44
Exon sequences
Seq C1 exon
GGCTCCCGTTCTGGTGTCTCCTGGATGTGATACCCATAAAGAATGAGAAAGGGGAGGTGGCTCTCTTCCTAGTCTCTCACAAGGACATCAGCGAAACCAAGAACCGAGGGGGCCCCGACAGATGGAAGGAGACAG
Seq A exon
GTAGGTGCATGTAGGTGCTGTGGTCGGGGTATTGGGTGCCGCAGGCCCGGGCGGGGCCTTGGCACCCAGTCTGAGTACGGGGGTCCCCCATGCACCTGCATTCATTTCACTCCCACTCAGGCTGCCTGAGAGGCCTGTGCTGCTCTCATCTCCACATTCCTCGGTATGGGAATATTTTTTCCAAATAGACAGATTGAGACAAAGTTGGAGTTTTTAAGTCAACTTTATTAAGAAACTGAAAGCAAACAAACCCAATTGTACCTGTGAAGCAGGTACTTTCTGACCAGTTAATAAGGTTGAGCACAGACCCACCAGGTTCCTCTTTCCTACAGCAAACCTGACTGGGGGTGGAGCTCTGGGCAAAGCCTGCTTTTAAGTTCTTCGAGTCTTTCCCCTCTTGTGTCCTCCAAGGCTGGGGCAGGCCTTTGGGCAGGTTACAAAGCTGTCAAGGCCTCTTTGCCATTTGGGGATGCTGGGGGTACTCTCCACTCCCACTCGCGTACTCCCAGTGCTGGGTCTGCCTCTCCATGATGTCAGCCTTCATTGTCACCCTCTGGTCCCTGCACTAGCTCCTGGGCTCCTGCTGTAAGTTCCCACACCTCTGCTGACGGCCTCCTGCTAGTTCTCCACCCTGGCCCTGTGAGGTACCTCCTCGCTTCCTGTCCCAGGCCTTTCCCCGTAGAGATCCTCTGGTCCAAACCTCCTCTTCCTGGAAGCAGACCCCAGAGGTAGTGTCTGTAAACACTCCTAGGACTGCCCATTGCTGGGCTGGGCAAGTGAACCCAGGAAGTGAGGAATACCTGAGCCCCCAACTCTAAACATTCTAAGTGGTCAATGAGCCAGACCAGTCCATGGGCCAGCAACTGTGTCCTACACCTGACCCGGAGCTAGGGTGTGTGGGCACACACCCATCATCTTCATGGGCCCCTCTTCTTTCGCAG
Seq C2 exon
GTGGTGGCCGGCGCCGATATGGCCGGGCACGATCCAAAGGCTTCAATGCCAACCGGCGGCGGAGCCGGGCCGTGCTCTACCACCTGTCCGGGCACCTGCAGAAGCAGCCCAAGGGCAAGCACAAGCTCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135519:ENST00000257981:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.223 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PD(28.7=67.4),PF051168=S6PP=PD(37.4=73.9)
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:
CCGTTCTGGTGTCTCCTGGAT
R:
CTTGTGCTTGCCCTTGGGC
Band lengths:
255-1196
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