MmuINT0085856 @ mm9
Intron Retention
Gene
ENSMUSG00000052726 | Kcnt2
Description
potassium channel, subfamily T, member 2 [Source:MGI Symbol;Acc:MGI:3036273]
Coordinates
chr1:142470172-142471434:+
Coord C1 exon
chr1:142470172-142470255
Coord A exon
chr1:142470256-142471305
Coord C2 exon
chr1:142471306-142471434
Length
1050 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
TTCATTCATATGCATTATAGATG
3' ss Score
5.78
Exon sequences
Seq C1 exon
TCATTTGTGAAAGATTATATGATTTCTATCACCAGACTTCTTTTGGGACTGGACACCATACCAGGATCGGGGTTTCTTTGTTCT
Seq A exon
GTAAGTTACTCATGTCTGGAAGAGGAGAGAATTCTGATCGAAGTTTGATCGGAGCGTCAACTATGTGCTTTTGGTGACTCGTTTATAACCAAATTTTTTTCCTCATGTGTGTCTATAGAATTAATCTGAGATTTTTTTCTAGTTCATTAGGTCATTAGGCCTTAGATGTATTATATTTTTTCTTTGTGCCTCAAGCATTACAATTAATATTGTTATAAAACCATTCTATACAAAACCAAATACAGTTCCTCATTGTTGATGTTGTTTTAGCTATCAGTTTTGACAATGACATGTCCAAGATTTTGACAATGACAATGTCCATCAGCAGGGAAGTTCTGGCACTCAAACCTCTATCTCTCTGAGATGGGATCCTAATACACTGCTCAGACTGTCTTCATATTCTGGAATCAAGGAATACTCCACTCAATTCCTTTCAGATTTCAGTGAGACTAGACCTGTGGTATTGCACATGGTTCAAACATGCTGTTTTGTATAAGAGTGTAATACATAGAATACAGTAGATTGCTAATGGATCAGTTGTACAAGGACCTGTGTAGAAGAAGGTCCTTGGCTTCCTGCCTGGAACCCTGTGCTCCTTCTACCACAAATTTTCTTCTGTACATGTAAGAACAATGGGGCAAGTGGATAGGACTTCTATTATGAGAATAGTTCTGCACCTTACTATTTTTTCTCTATATAATTAATTCCCTAAATATCAGTGTCAGTTGTGTTACTTCACCATCTTGAAAGTTTTCAAAGTTTACAGTATCTCCCAGATCTCTACCAGTGTTGTTCTGCCTACTTTTACTGGATCAATAAAATGCCATACTGGCCTAGATTGAATACTTAATGTTTCTTGCCTTAGAATGTGCTCTCAGGATAAGCTGAGATGGAGTAAATTAGTAAGCCTCGTGAGTGAATAAGGTTTTATGAAATGCCACTTTGAGATTTTTAAAATATACACCGGCAGGGTTTTGAAGAAGAGAAAAATGACCACTGGGATTTTTATTCTTAAACATTGATTGTGTGATTCATTCATATGCATTATAG
Seq C2 exon
ATGAAAATCACTGAAGATGACTTGTGGATCAGAACGTATGCCAGACTCTATCAGAAGTTGTGTTCTTCTACTGGAGATGTTCCCATCGGGATCTACAGAACAGAATCTCAGAAACTAACGACATCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052726-Kcnt2:NM_001081027:24
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=0.023
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:
TTCTATCACCAGACTTCTTTTGGGAC
R:
CTCAGATGTCGTTAGTTTCTGAGA
Band lengths:
190-1240
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: