HsaINT0084703 @ hg38
Intron Retention
Gene
ENSG00000107147 | KCNT1
Description
potassium sodium-activated channel subfamily T member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr9:135770298-135771095:+
Coord C1 exon
chr9:135770298-135770447
Coord A exon
chr9:135770448-135770856
Coord C2 exon
chr9:135770857-135771095
Length
409 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
TTGCCGGTGCCTCTGCCCAGGTA
3' ss Score
6.81
Exon sequences
Seq C1 exon
GGAGGGACAGGAGTCTCCGGAGCAGTGGCAGCGCATGTATGGGCGCTGCTCCGGCAACGAGGTGTACCACATCCGCATGGGTGACAGCAAGTTCTTCCGCGAGTACGAGGGCAAGAGCTTCACCTACGCGGCCTTCCACGCCCACAAGAA
Seq A exon
GTAAGGCCGGGCTGCATCCACAGGGCTGGCGCTCCAGGGCTGCTCTGCTCTGTGCCCTCCCCACCCTCCCGGTCAGGCACAGGGGTGGCCCTGGGGCGGGGCTGCAGAGGGCTCGGGGGAGGGCATCAGGTCATCCTGCCTGGCGAGGGCAGCCGCAGGACTGGGCTCCGGGTCCACATAAAAACCTGCCACGCGGCTCCTCCCTGAGGCTTGTGGGCTGACCCCAGCTCTCTGGTCCCCAACACCTCTGGGACGGGAGGGCTCAGCCAAGGTCCCTGACCCCAAATGGCCCCCAGGAGGAAGACGCGGAGCTCCGGTGGGGACTCTGGTGATTTGCAGGAAGGGCAGGCAGGGAGCGGGACAGGGCGGGTGAGCGGCGGTACCTGAAGTTGCCGGTGCCTCTGCCCAG
Seq C2 exon
GTATGGCGTGTGCCTCATCGGGCTGAAGCGGGAGGACAACAAGAGCATCCTGCTGAACCCGGGGCCCCGGCACATCCTGGCCGCCTCTGACACCTGCTTCTACATCAACATCACCAAGGAGGAGAACTCGGCCTTCATCTTCAAGCAGGAGGAGAAGCGGAAGAAGAGGGCCTTCTCGGGGCAGGGGCTGCACGAGGGTCCGGCCCGCCTGCCCGTGCACAGCATCATCGCCTCCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107147:ENST00000628528:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.098 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(47.2=100)
A:
NA
C2:
PF0349313=BK_channel_a=PD(8.5=11.1)
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:
CATGTATGGGCGCTGCTCC
R:
CATGGAGGCGATGATGCTGTG
Band lengths:
355-764
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