MmuINT0085847 @ mm9
Intron Retention
Gene
ENSMUSG00000052726 | Kcnt2
Description
potassium channel, subfamily T, member 2 [Source:MGI Symbol;Acc:MGI:3036273]
Coordinates
chr1:142405961-142409611:+
Coord C1 exon
chr1:142405961-142406190
Coord A exon
chr1:142406191-142409397
Coord C2 exon
chr1:142409398-142409611
Length
3207 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
CTCATGTTTTATTGTGTTAGGTA
3' ss Score
7.82
Exon sequences
Seq C1 exon
GTTTGGTGTCTGCTTGGTTGGTGTTAGGAGGGAGGATAATAAAAACATTTTGCTGAATCCAGGTCCTCGATACATTATGAATGCTTCAGACATATGTTTTTATATTAATATTACCAAAGAAGAAAATTCAGCATTTAAGAATCAAGACCAACAGAGAAAAAGTAATGTGTCAAGGTCATTTTATCATGGGCCTTCCAGATTGCCTGTCCACAGCATCATTGCCAGCATGG
Seq A exon
GTCAGTACAAACTCATTGGAATTACCTTTAGTGTGTTTTTCTAAGATTATAAATGCACATCTATTTTCCTAAAAAGTCATAGTCAACTTCAAAACTTATTTGTGAATATTATAAACTATGTATGATTAGGTAATACTGAACAAAATTTCTAAATCATTTATTAAAAATAGATTACCAAAATGTACTCAGTAAATATGATTCTGATTATAAGCGCTTGCCTTGTATATTTTTCTTGTTGGTTATCTGTTCAATGATGAATTGGTACTATTTCCAGTGGGCTTTGAAATTTTTTTCAAAACTCACTCATTTCTCTGTATGCCCATCATGGACTTTACATTTATGACACTAACATACAGAGCAAGATAATATAATATAATGAAATTATTAAAAAATTTCCCATTAAACTACCTACAAACCTATAAGTGTATATGATTTCTTGTCACAAGGAATGCATGCCATTCTCTTTATGGAATTTCATTGGCTTTACTTACTCAGTGAGATCCCTCTTTTCACCTGTTTTGGATTTCTTACTTGAACTATATTTAACCTTACTACCCTTAGCTTCATTTCCCAGCCACCCCCAATCAGAGGCTGCTATTTATACACTGTTCCATACATAACCAGCATATGCTATTGACCTTCATGATTTCACACCTCCGTAAGTTCCTCAAAACGGTTGGCTTTTGATGTGGCTTCAAATATCGTGCCCTTCATGGCTATCTTTACCTCAGCCTGTAGTCATGTAACTGAACACAGTGTTCAGTGGTTCCAATCCATGCTGTGGTTAAAAATGGTTACAGAAAGTCGCAATAGTGCCATTCATGGATTAAAGATGCAGAATAAATGCAATGAGCATTGCTAGTACTTGTAACAACATCTAAGTGAAAGTAAATAGCCGAGGGGCTGTGAGATAGATAAGTGGACACACAGATTATTCAAACATGAGGACTTGAGTTTGTTCTCAAGAATCTACATGACAAGGCTGAACATGACAGCATACGCATTTAATCCCAGTGCTGAAGTGCCAGAGACAATCTGCATAGATGTTGTCTAGACAGCTCACCAATGCTGTTAACCCTCAGCAACTCACAGAGCCTGTCCCGAAAAGCAAGAGAGATGACTCCTGAGGAACATGCATTTTATATCTGGACTTTACACTTATTTCTGGACTCCACATATATTTTTATACTTGTTAGGTGTCCCCCACATACACTGTATACCTGTACACACACAAAAAATATACAGACATCTTCACACACTTGTACACACATACACAACAAAGAAAAAGAGAATAGAAAAGTCCAGAAAAAGGAGACAGACACACCTTTGTGATCTCATGGAAGTCAGAGATTCAGTTGTAGGAAACATATTGATCTTTATCTTGAAAACCCCAGTGAGGCAATAATAGTGTTAGGTAAACTTTGTGACTGTCATCCCAAACTCATACAGTGAAACCAAACCCCTTCCAGTGTCATAGTATATACCTTTATTTGGGAATTTTATTTTTATAAAGAAATTAAAATGGGCCATTATGGCTAGCAGTGAACTGTCAGGAAGAAGAAATACAACATAGACTCATATTCTGGAAACTTATGAAAAAAGGGAATTGAAGGGATGGCAGTCATTAAACTAGAAATGAAAACAGATCTATTTCTCACCACTTTCTGAAAAAATGACAACAATGTAAAGACTTCATTCTGAAATTTTATCCTTCCTGATTGTGAGAAATTGGTCTCTGCTGTTATGGCATCTAATGTGCTCCACATTGTTATGGAGGCTTTATCAAACTATTACAATTATTATGAGATTCACACACAAAAAATAGAATAGTGCTGATGAACAATTGAACTAATAAAGTACAGTAGATCCTATATTCTGAAGACCTGTTATCCAAAAATAAGTACTTCAACAGAAGATTAGAAAAAATGGTCAGTGAAAAAAAAAAAACAACCAACCAACCAAACAACAACAACAACAAAACCCTCTAAGCAGAGGTTACTTATTTATGGCAGAGAGAACAATCTCAGAAAGGACCAAGCATTTGTAAGAGGAAAATATATTGAAAGGAAAGTCTTGTTCCGGTAGCTTTAACTGTTTCTTCAGATCTTTCTGCTAGATTATAAATTCCTCATACCTATGTGAGATCCTGGCATATATCAGTATTGGCAGTCTGACTGACAACAGAGCAAATGGAGCCTCCATACAGGCATGGTTCTCTCTGTGTGGTCTGTGTTAGAAAAGAAAACAACTATGTGTTTGGAAGTAATGTTCAGTCAGATACATTGACAAGAAGATTATATAATCATTCTTTGAAAGTGAGAAAGGGTTTAACACTCAATGTTGGGACAACTTTACATGAAGAGACACATTTGTAAGATGAAAATAATCTCATTTTGCTTTTGATAAGACTTGAAAAGAATCTTAACATGCCCTATTTTCTTTTTGTTCTGAAGTACTAGGGTACTGCATGATCATCTATAGGGTTAATGTGTTAGATGTACACTCAGATCTACAACTTTAAGATTATAGCATCTGTGATAAATTTCTTTTGCATCAATAAATCAATTTTATAAAATTTAACTCTATCTATTTGCTTAAGATTTTCTTTCGTTAGTTCTAGAAAACCTTCTTCTTTTCTCAGTGAGACAGAGTTGTCATATAATGTGATATCTAGTAATCATCATCATCTTTATTCATATATTGGAATGACTGATCCCTGGTCCTCATATAAGGAATTTCCTGGAGACCAAACCTTTTAAAAACCTCACTGCCTCTTACATATTCACAATCGAATCCAAGCTCTCATCACAAGAAACTGCATCTATAACAAATAATTGTTGATGCAGGGTCTCCTTGGGTAGCTTTGCCTGGCTTGAAACCTACCTGGTAGATCAGACTCCCCTTGAACTCACACAGATCAACCTGCATCTGCCTTCTGAATGCTAGAATTAAATGTATGTGGCACTGTGGCTGACTGAGCCTGACTAATCTCACATATAAATTTGATATACATTTATCCAGTGAAATGCTTATGGAAAAAATAACCAAATTACCTTGAGAGCTTGAGAGAGATTACACACACACACACACACACACACACATGCATAAATGCATGCTTGATAATGAGATTAGTTTTCACCATCAAATGGTCATTATGTCACAGGTAGTAAAAATGTGCTAATAGATTCTCATGTTTTATTGTGTTAG
Seq C2 exon
GTACTGTGGCTATAGACTTGCAAGACACAAGCTGCAGAGCAACAAGTGGCCCCACCCTGGCTCTTCCTTCAGAGGGAGGCAAAGAATTAAGAAGACCTAGCATTGCTCCTGTTTTAGAGGTGGCAGATACATCATCAATTCAAACATGCGATCTCCTAAGTGACCAGTCCGAAGATGAAACTACACCAGATGAAGAAACATCTTCAAATTTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052726-Kcnt2:NM_001081027:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.126 A=NA C2=0.417
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=PD(14.5=10.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: