HsaINT0084696 @ hg38
Intron Retention
Gene
ENSG00000107147 | KCNT1
Description
potassium sodium-activated channel subfamily T member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr9:135758414-135759859:+
Coord C1 exon
chr9:135758414-135758508
Coord A exon
chr9:135758509-135759669
Coord C2 exon
chr9:135759670-135759859
Length
1161 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
AGGCCGCCCCTCACTGCCAGGGG
3' ss Score
5.45
Exon sequences
Seq C1 exon
AATGACTTCCACCGTGCCATCCTGCGGACACAGTCAGCCATGTTCAACCAGGTCCTCATCCTCTTCTGCACCCTGCTGTGCCTCGTTTTCACGGG
Seq A exon
GTGAGTGCCGGCCGTCAGTGTGAGCACCCCAGGACGTTGGGAGGGCCCGAGAGGCAAGCAGGGCCGGGCGAGGGGATACAGATGCCTATGTCCAAGCTATCGGGGCAGAAAAGGCCACAGTGCCTGGGCTGCGGGTGTCGGGCCACCAAGCTGGGACTGAGGTCAGGAGGCAGCTCCAAGCCCACGTCCCCAGTACACGAGCAGCCCTGCAGCCCGACTCCTCCAAGGACAGAGATACCCAGATCTGGCTTCCTGGTCTATGCCATGGACGTAGAGAAGGGGACTGGCCCCTAGGCCAGGTGGGGTCTCTTGGCTGAGGCCCAGCTGAAAGCAGGGTCTGGAGGCAGCCAGGGTAAAGGTGGGGGTGCCCAGAGCTGCGAGGGCCTCCAGCCCACCCAGGCATGCCCACTGTGCCCACCTGCCTGTGTCCTCGTGGAGGGCTCCATGTTGCTGCTCTGCCTTGGGTCCCAGCGAGGCCTGGTCACCACTTCCCGTCCCCAGGCAGGGATGTCAGGCAAGCACTGTGCCCTGGGGGAGGGAGAGTGCCCTGCGTTTCCCGCCTCCCTTCCCCCCTGCCCCTCATGACAGACTGACAGACACAGAGCTGAGTGGGCAGATTGGGGCATCCATGAGGATAGCATCTGGGACCTGGCGGCGACCCCAGCCCTGCCCATTAGACCTCCCAGCCTCAGGCCTGGGCGCTTGTCTGGCTGTGCCGGGCAGAGGCCTGAGTGTGGTGGGTAAAGGGGCAAGGCTCTGAGATGGGGGTAGAGGGCCAGACCCCAGGCCCACCCCTGTGTCACCCAAGCCCACGCTGATGACACAGCCCTGCATCCCCTGCTCCCAGAGAATGTTCCAGGGACCTAGGAGAGAGCCACCCGGCAGGCAGGGAGGCTCCGGGGAATTCGCCGTGAACAGAGGCCGCCATGCTGTGGCCAAGCTGCATTGTCAGCCAGCGTCAGGCAGGAGGTGGCTCCGGCAGAGCTTGGGGACAGATGGGCAGGGCTGAGGGCCTGATGCCACCCAGCTGTCAGGAGGGCGGGGCTCGCCTGGTGATGCACAGCTCAGTCTCCTGGGCAGTGAGGGTCCCGTGGGCAGGCAGGATCTCTGAGGGGCCACGGCCCCCCAGCTCCTGGGCCCCAGGCCGCCCCTCACTGCCAG
Seq C2 exon
GGGTTGCAGGACCTGCGGCATCCAGCACCTGGAGCGGGCGGGCGAGAACCTGTCCCTCCTGACCTCCTTCTACTTCTGCATCGTCACCTTCTCCACCGTGGGCTACGGTGACGTCACGCCCAAGATCTGGCCATCGCAGCTGCTGGTGGTCATCATGATCTGCGTGGCCCTCGTGGTGCTCCCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107147:ENST00000628528:9
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:
PF0788511=Ion_trans_2=PU(12.5=31.2)
A:
NA
C2:
PF0788511=Ion_trans_2=FE(72.4=100)
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:
AATGACTTCCACCGTGCCATC
R:
CACGAGGGCCACGCAGAT
Band lengths:
270-1431
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