MmuINT0085866 @ mm9
Intron Retention
Gene
ENSMUSG00000052726 | Kcnt2
Description
potassium channel, subfamily T, member 2 [Source:MGI Symbol;Acc:MGI:3036273]
Coordinates
chr1:142321770-142323569:+
Coord C1 exon
chr1:142321770-142321950
Coord A exon
chr1:142321951-142323404
Coord C2 exon
chr1:142323405-142323569
Length
1454 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
GGGTGGAAAATTCATTACAGTTT
3' ss Score
0.8
Exon sequences
Seq C1 exon
CATTTGTGGGATTCAGCATCTAGAACGAATTGGCAAGAAGCTCAATCTCTTTGACTCCCTTTATTTCTGCATTGTGACATTTTCTACTGTGGGCTTTGGGGATGTCACTCCTGAAACATGGTCCTCCAAGCTCTTTGTCGTTGCTATGATCTGCGTTGCCCTTGTAGTACTCCCTATACAG
Seq A exon
GTAAACAGAACCCTGATAACTTTTGTAGAGATGTACAAAGCCATGTAAAATTGAAACTGCTATATTAATAAAAAAGTACCTGATTATTTGTTTAACACTTATATTATAAGATATGCTATTAATAGTTTAAGGAAGTGCTAACACTATTACAGAAATATTTTCATAATTTTTTAGACACCTTTTCCCTCATTGACACAAGTGATAGCTCATATTTTGATATGATTATTCAGCATCATTTAAAAAATGTAGCTTATGTGATATTGCTAACCATTAAATAATTTAAATTATTGGATGTTAGATTAAGGATTATGTTTGGAGAATAAATAAGAAACGAAAACCTATGGCATAAATTGCAGTGAGTTTAAAATTAATTTCTTATGTTTATCAACTAAAGCATACAGTGGACATGGCACATGCTCATTATCAAGGATTTGGAGAGATGCACAGATCAGAGATATAAACCATAACTAGTCTACAGTTCTTTTTTACAATGAGTCCTGGTTTCCCATGAATGAACAAATCAAAAATAATGTATGATAAAGGCAAATTAAACCTGCATGCTAATTATATAACCTTAGCCAATTCACACTGTCATACCTAGCTCCCAGACACTCCTCTACAATATCACCCAGTTCACTCTAGTACTCATCCTATATTGCTAGCATGGGGCATTGTAAATGTTAATGCAGCTGTCTCCTCTTGCATTATATGGGCACAATGGGCTGAAGACTCACTGTCCTTGAATCTTACCAGGCAAAGTTTGCTTGTTTTATATTCCTAGTTGGGCTCCATCAAGCCCTTCCTGCAGGTTATTAAATGGCCAGGTTGAAAATTCAGCCTCGTTGGGCATGGTAATACACGCCTAAATCCCAGCACTTGGGAGGCAGAGGCAGACGAATTTCTGACTTCAAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGACTACACAGAGAAACCCTGTCTCAAAACAAACAAACAAACAAACAAACAACAAACAAACAAACCAAAAACAAAACAAAAACAAACAAAAAGAATGGAAAGAAAATTCAGCCTCTTGGCCACTTAATTCCACAGCTACCTTTGCCATAAGACTGCAAACTTCTTAAAGTGAGCAAATGGCAGAACTGTTAAACTATATTTAATGAATGGCATATTACATCATACTTTCCTGGATACAAAGCAGATGGACTAGCCCCTTCATGTTCTGAGATGGTATAATAGTAAAATCATTCTAATGTGTTTCTTTGGAGACCTGAAGCCCCTGGGCCTCATTGAAATCCCTGTGGACATCATGTGGTAAGCCTGTTGAGTACTAGTGATAATTTGATACTCAACAATTTTAAGGGTAAGAAATGCCGTGTACCTAATAACAGTTGGGGCACTGTGTTGGGCTTTCACTTTCATATTTGATGCTTTTCATTCATGGGTGGAAAATTCATTACAG
Seq C2 exon
TTTGAACAGTTGGCCTATTTGTGGATGGAGAGACAAAAGTCAGGAGGAAACTACAGTCGACACAGAGCTCAGACAGAGAAGCATGTTGTCCTGTGTGTCAGCTCCTTGAAGATTGACTTACTTATGGATTTTCTAAATGAGTTCTATGCGCATCCAAGACTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052726-Kcnt2:NM_001081027:9
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=0.000
Domain overlap (PFAM):
C1:
PF0788511=Ion_trans_2=FE(71.4=100)
A:
NA
C2:
PF0788511=Ion_trans_2=PD(9.5=14.5)
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:
TGTGGGATTCAGCATCTAGAACG
R:
CTGTAGTCTTGGATGCGCATAGA
Band lengths:
342-1796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: