HsaINT0084332 @ hg38
Intron Retention
Gene
ENSG00000089558 | KCNH4
Description
potassium voltage-gated channel subfamily H member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr17:42165449-42166546:-
Coord C1 exon
chr17:42166297-42166546
Coord A exon
chr17:42165694-42166296
Coord C2 exon
chr17:42165449-42165693
Length
603 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TCCCCATCCCTTACCTACAGGGA
3' ss Score
10.21
Exon sequences
Seq C1 exon
TTACTGCGTGACTTCCCAGACGAGCTGAGAGCTGACATTGCTATGCACCTGAATCGGGAGATCCTGCAGCTGCCGTTGTTCGGGGCAGCGAGCAGGGGCTGCCTGCGGGCCCTATCGCTGCACATCAAGACCTCGTTCTGCGCTCCGGGCGAGTACCTGTTGCGCCGTGGGGATGCCCTGCAGGCACATTACTATGTCTGCTCCGGCTCGCTTGAGGTGCTCCGAGACAACATGGTGCTGGCCATCCTGG
Seq A exon
GTAAGGACACCGTCACCCTCTACTACCTACCCTGGAACCACCCCCCGCAACCCCCACTGAGGACTTGGGAATGGCCAGGATTCTAGGGAATGGGATACCCCTCGTGGATACCTACAGTTCCTGCTGAGGAGTACTCTCTCGGTCCCTCCGCCCTACGACCATCGCCTTTAGACAATTCCCCCTAATCCCCTTGGGCATCCCTCAACCCATCAACCCTTCCCGGTGACTGTCCCCCAGCTCAATTGATCCTTTCCCATTGCTCCACTTCCCAACCCCATTGACCTTTCCCCAGTGACCCTAAACTCCATTCACTTTTACCCTCTAACTGACCTGACCCCTCCGGCCATTGTGATTTTTATCACCCAATTCCACTGATCGTTCCTCTGGCCCTACTCACTCCCACTGACTGTCTCCCAGCCTTACCAGTCATTCTGCACTGACCTTTTCCCAATTCCATTGGTTATTTCCACCAATCCCATTGACTGGCCCACCTTCAACCATCCTTCAAACACACTGACCACCCCTCAAATCCACTGAGCACCTCCAGCTGATATCCTTTCGTTCTCACTGCCCCAGCTGACTGTCCCCATCCCTTACCTACAG
Seq C2 exon
GGAAGGGGGACCTGATTGGAGCAGATATCCCTGAGCCGGGGCAGGAGCCTGGGTTGGGAGCAGACCCAAACTTCGTGCTAAAGACCAGTGCTGATGTGAAAGCTCTGACCTACTGTGGCCTGCAGCAGCTGAGCAGCCGAGGGCTGGCTGAGGTCCTGAGGCTCTATCCTGAGTATGGGGCTGCCTTCCGGGCTGGCCTGCCCCGGGACCTCACCTTCAACCTGCGCCAGGGCTCTGACACCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089558:ENST00000264661:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.146
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(40.8=47.6)
A:
NA
C2:
PF0002724=cNMP_binding=PD(58.2=69.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCAAGACCTCGTTCTGCG
R:
CGCAGGTTGAAGGTGAGGTC
Band lengths:
355-958
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