HsaINT0084741 @ hg19
Intron Retention
Gene
ENSG00000162687 | KCNT2
Description
potassium channel, subfamily T, member 2 [Source:HGNC Symbol;Acc:18866]
Coordinates
chr1:196249990-196251486:-
Coord C1 exon
chr1:196251403-196251486
Coord A exon
chr1:196250119-196251402
Coord C2 exon
chr1:196249990-196250118
Length
1284 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
ATAATTTGTGTGTGTTATAGATG
3' ss Score
9.03
Exon sequences
Seq C1 exon
TCATTTGTGAAGGATTATATGATTTCTATCACGAGACTTCTGTTGGGACTGGACACTACACCAGGATCTGGGTTTCTTTGTTCT
Seq A exon
GTAAGTTAATAATCTCTAGAATAAAAGATAGTTGTGATAGAAGGTTCTGAAATCTATCTACCGTGTACTTTGCTAATTCTTCTATGTCATGTGTTATTTTTTGTATTGTGAATCCAGATGCATTTGAGTTTTTAAAATTCCTTTAAAAATTTCAAGGAAAACATATTATTTTTACTTAATAATCATAATAAATAGCCATTTTGTGTAAAATGCTGAATGAATTTGGCCAGGCGTGGAGGCTCACACCTGTAATCCTAGCACTTTGGGAGGCTGAGGCGGGTGGATCATGAGGTCAGGAGTTAGAGACCATCCTGGCTAACACAGTGAAACCCCGTCTCCACTAAAAATACAAAAAATTAGCTGGGTGTGGTGGCGGGCCCCTGTAGTCCCAGCTACTCGGGAGGCTGAGAATGGCGTGAACCCAGGGGGCAGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCAACAGAGTAAGACTCCATCTCAAAAAAAAAAAAAATGTTGAATGAATTTTTTTTTGTTAACTGGCAATTTGAAACTGCCGTAGGATACTATACTGTCCACAAAAACGGTGATCATGCTTTTTAACTCCTTTGTTTTATAGATAAGTATACTTTGTCCAAGTATGCTGAATGAAATGATTTGGTAACAGTTCAGATTTACAAGAAGCAAAGGGGCACTACAATTTTTGTTTCCTGTCTGGTATCACGATGCTTATTCTACTATTCATCTTTCTCAATATAGGCATTATTGGAACATTGGGTGGAACAAGTCAGTATGGTGCTAGAGTGTCTTTTGCACTTCGCATTTGGTAACATCAGCATACCCTGTACATTAAATACCAGTGTCAGCCTCCAGTTATTGCAGCATGCAAAATAGTTTCCATATGCTTTACATTTCCCAGTCAATTACCAGTGCTCTATTGCCTACTGATAACGAACTAATATAATGTCATACTGCCCTAAATTGAGTACTCGGATTTCTTAAGTTTGGTGATGCATAATAAATAAATTTAATACATGGATAAGCATGAAATATTACTTGGAGATTTCCAAATACTAATAATTTCTCCCTTTAAGAAGTGAAAAATGCTTCAGCCAGGGATGTCGGTTGAGTCTGCAGTGAGCCATGGTTGCACCGTTGCACTGTAGCCTGGGTGACAGAGTGAGACCCTGCCCCCCACAAAAATAAGCAAATAAAGAAATGTAAAGTTACCACTAGGTTTTTATTTCTGACACATTTAATATGTAAATAATTTGTGTGTGTTATAG
Seq C2 exon
ATGAAAATCACTGCAGATGACTTATGGATCAGAACTTATGCCAGACTTTATCAGAAGTTGTGTTCTTCTACTGGAGATGTTCCCATTGGAATCTACAGGACTGAGTCTCAGAAACTTACTACATCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162687-KCNT2:NM_198503:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTATCACGAGACTTCTGTTGGG
R:
CTCAGATGTAGTAAGTTTCTGAGACT
Band lengths:
190-1474
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)