HsaINT0084712 @ hg38
Intron Retention
Gene
ENSG00000107147 | KCNT1
Description
potassium sodium-activated channel subfamily T member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr9:135784024-135784618:+
Coord C1 exon
chr9:135784024-135784125
Coord A exon
chr9:135784126-135784534
Coord C2 exon
chr9:135784535-135784618
Length
409 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
CTCCCTCCCTCCCTGGCCAGTCC
3' ss Score
9.69
Exon sequences
Seq C1 exon
AGGGAGCGAGAGAATGGCTCCAACCTGGCCTTCATGTTCCGCCTGCCGTTCGCCGCCGGCCGCGTCTTCAGCATCAGCATGTTGGACACACTGCTCTACCAG
Seq A exon
GTCAGCGGGGAAGCGGCAGCAGGAGGGTGGCGCCTGGGTGGGACCCCCGTCATGCCCTCAGCTCTTCAGCCTGGTCCCTGTTCTGAATGATAGGACTCCCTCTGAATGACCTTCCCTGGATTCCAAGGAGACCTCTGGGCCCTGTCCTTGCCCCAGGGATTTCTGGGCCCTTTTTGACCTATGGGTGCCTGGCAAGGGAGTTTTCTTAGAAAAGGCCTCCCAGAACTCTGCCTGTGGGTCATGTGGTGCTTGGGGACCTGGTGGTTCTGTGTGTGTGTATGCATGAGGGGTGGCGAGCCCGTGGCCGGTGGGGTATGGACCTGTGTCCCACGCCCGTGCCCGCGTGCCTCACTGTGGCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTGGCCAG
Seq C2 exon
TCCTTCGTGAAGGACTACATGATCACCATCACCCGGCTGCTGCTGGGCCTGGACACCACGCCGGGCTCGGGGTACCTCTGTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107147:ENST00000628528:24
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=0.000
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:
AGCGAGAGAATGGCTCCAACC
R:
GGCACAGAGGTACCCCGAG
Band lengths:
182-591
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