HsaINT0084715 @ hg38
Intron Retention
Gene
ENSG00000107147 | KCNT1
Description
potassium sodium-activated channel subfamily T member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr9:135785310-135786521:+
Coord C1 exon
chr9:135785310-135785330
Coord A exon
chr9:135785331-135786196
Coord C2 exon
chr9:135786197-135786521
Length
866 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCCTGCCCTGCCCTGCCCAGTCC
3' ss Score
7.68
Exon sequences
Seq C1 exon
CCCCACGACCTCAGAGCCCAG
Seq A exon
GTAAGCAACCCCTCCGTGCCCACGCAGCTTCTGCGGAGCACCAGAACATCGCAGCTTCACATGGAGAAGCCTGCCAGGCCCCACCCACCCACCCACCCACAGGGCCCTGGGAAAGCCGAGGCAGGAGCGGGTCCCACGGATGTGTCGGCCCCAGCACGGCTCAGAGAAGGCTGTTGACACTCACTCCCTCCTGCACTGGTGGTGGGGAAGCTGAGGCCTGGGGGGAGTAGCCTGTGAGTTTGGACACCAGGTGCACCCCCGCCCCCTCCCAGGCCCCACCAAGGCAGGCAGCCCCCATGCCCATCTGGCCTGACCAGCCCCCAGCCTCCCAGGCCTTTCTGAAGGTGCCACCCAGGTGGGATGCCTACCTCTTCCCAGCACCCCACGACCCACAGGCTCTGGCACCCCACGTTCCCCAGGTTCGGGGCCTCCAAAGGGTGTGTTTGCAAGAGGGATCAGGGCTCATCTGCAGATGGAGAAATTGACACGCAGAGGGGGTGACCTCTCAGGGCAAGGCCAGGATGTGCTGGGGTCCAGATGGGTCCCAGGCCGGACCCACAGAAATAAGGGCTCAGAGAGGCGAAGGGAGCTGCCCTCAGCAGCCTGGCGAATCCCTTGACCAGGCCCGGGCAGGGTGGGTGGCCCGGCGATCTGTGCTCAGGAGGAAACCAGGCACATTCTTTCCAGAGGAGGAAGGCACATGCACCCTGGGGTCTGTCGTCGTCCTCTTCCCTAACACCCCCAGCTGCTCCCACGCAGGCCCCAAGCTGCAGAGCCCACACCTCTTCCTAAGCCCCTGCCCCAAAGCCCGCGACCCTCCCGGCAGCCTCACCCCTCCCCGCCCTGCCCTGCCCTGCCCTGCCCAG
Seq C2 exon
TCCCAGATCTCGGTGAACGTGGAGGACTGTGAGGACACACGGGAAGTGAAGGGGCCCTGGGGCTCCCGCGCTGGCACCGGAGGCAGCTCCCAGGGCCGCCACACGGGCGGCGGTGACCCCGCAGAGCACCCACTGCTACGGCGCAAGAGCCTGCAGTGGGCCCGGAGGCTGAGCCGCAAGGCGCCCAAGCAGGCAGGCCGGGCGGCGGCCGCGGAGTGGATCAGCCAGCAGCGCCTCAGCCTGTACCGGCGCTCTGAGCGCCAGGAGCTCTCCGAGCTGGTGAAGAACCGCATGAAGCACCTGGGGCTGCCCACCACCGGCTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107147:ENST00000628528:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.555
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:
CCACGACCTCAGAGCCCA
R:
CAGCCCCAGGTGCTTCATG
Band lengths:
328-1194
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