HsaINT0084708 @ hg38
Intron Retention
Gene
ENSG00000107147 | KCNT1
Description
potassium sodium-activated channel subfamily T member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr9:135777338-135778495:+
Coord C1 exon
chr9:135777338-135777510
Coord A exon
chr9:135777511-135778423
Coord C2 exon
chr9:135778424-135778495
Length
913 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
CAGGACCGCTGTCCCCACAGGCC
3' ss Score
8.9
Exon sequences
Seq C1 exon
GGCTGCAAGCACAACAGCTATGAAGACGCCAAGGCCTACGGGTTCAAGAACAAGCTGATCATCGTCTCGGCAGAGACGGCCGGCAATGGGCTGTACAACTTCATCGTGCCACTGCGGGCCTACTACAGATCCCGCAAGGAGCTGAACCCCATCGTGCTGCTGCTGGACAACAA
Seq A exon
GTGAGGCTCCTGGGGCTCAGCCCACCCCGCCCACCCGGGCCCTCAGACCTGCAGCCAGCAGCCTCCCCAACTGGGCCCACCCTTCGCCTTTGCAGAGGGCACGGGAACATGGGGCCTCTGGCCTGGTCCTCTCAGCTTTCCTAAAAAGGGGGACTCTCCTTCCTGCTCCCAACTCCTCCTGCTCCCAGCTCCTCCCCACACCCACTCCTGCTCCCAGCTCCTCCCCACCCCCAGCTCCTCTGGCTCCTGGGTCCTCCCTGCTCCCTGTTCCCCCAGTTCCCAGCTCCACCCAACTCCCAGCTCCTCCTTGCTTCCAGCTCCCCCAGTTCCCAGCTACTCTCCATTCCCAGCTCCTCCCCACTCCCAGCTTCTCCCCACTCCCAGTTCCCCCTCACTCCCAGCTCCTCCCTGCTCCCAGTTCCTCTGGCCACCAGCTCCTCCCCACTCCCAGTTCCTCTGTCTCCCAGCTCCTCCATGCTCTCAGCTCCTGTGGCTCCCAGCTCCTCCCACTCTGGTCCTCTCTCCCCCTTTCCCCCTCCTCCCTTGTCACTCCTTCTGTCCTGTTTGCCTCCTGCTCCACTCACTCTGAGCCCCAGGATTGGGGTGGAGGGATAAATGGCTCTTCCTCCTGGGCACCTTTTTGCCCAGGGGACCCTAGGACCCTGACAGCTGAGCCCAGGGTCATCTTGGCTGTGTGACCTCAGCAGGTCCCACCCTCCCGGGCCTTGGTTTCCCCTTGAATAAAATAAAGAATGGCCCACTGGCCTTAAAGTACTCCCCAGGTCCCATACGCTGCGGTTCTGGGGAACCCCTGCCTGGCCCAGCTCTGTGCATGGAGGGTAGGGCCCCACTGGGCCTGAGGAGGGCAGGCCTTGAAGCAGGGTGGGCCCCTCCAGGACCGCTGTCCCCACAG
Seq C2 exon
GCCCGACCACCACTTCCTGGAAGCCATCTGCTGCTTCCCCATGGTCTACTACATGGAGGGCTCTGTGGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107147:ENST00000628528:20
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=0.003
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGCAAGCACAACAGCTATGA
R:
TCCACAGAGCCCTCCATGTAG
Band lengths:
240-1153
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