MmuINT0085817 @ mm9
Intron Retention
Gene
ENSMUSG00000058740 | Kcnt1
Description
potassium channel, subfamily T, member 1 [Source:MGI Symbol;Acc:MGI:1924627]
Coordinates
chr2:25757272-25759113:+
Coord C1 exon
chr2:25757272-25757510
Coord A exon
chr2:25757511-25758878
Coord C2 exon
chr2:25758879-25759113
Length
1368 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
GGTTCAACCCCTCTGTCCAGGGA
3' ss Score
4.85
Exon sequences
Seq C1 exon
ATATGGGGTGTGCCTCATCGGGCTGAAGCGTGAGGAGAACAAGAGTATCCTGCTGAACCCAGGACCACGGCACATCCTGGCTGCCTCCGACACCTGCTTCTATATCAATATTACCAAGGAGGAGAACTCAGCTTTCATCTTCAAACAGGAGGAGAAGCAGAAGAGACGGGGCCTTGCAGGGCAGGCACTATATGAAGGGCCCTCCCGGCTCCCAGTGCATAGCATCATCGCCTCTATGG
Seq A exon
GTGAGCTGGTGAAGTATGCAGGTGGAAGATGGGTGGCTTCCAAGGGTGCACTCCACACCCCACCTGCCACTGGGCAGGAGACTCCTGAAACCCAGCTCTTTCTGGACAGTGTGAGCCTCTTCTGGCCCAGGGTTTTGCATCTGTCCAATTGTGGTACCCCACCTATCAGAGTTTGGGTGAGCATCAGTTACCTGGGCAACTGAGAGCCTGTGGGGGTACTGTGGTAGATGAAGGACTAACCAGAGAGCCCTGGGGTCTCAGCCAGGCATCCCTGAACTAGATGAAGGCCCTGGGGTTTATTGAGTTAGCAATGGTTTATCTTCATGGCTCTTCCCTGGAACTGCTTGCTGTCTTCCCAAAACTGGTTCAAGAGACTTCCTGAACAGGGTTGGGCCAATACAGAAGGCACCAGTGGCGTGTGTCATCCTCTGCCAGTCTTCCAAGAGGTGATGGGGAACAGGAAAGAGTCACTTAGCCTCTCAGGTCCCAGACCCACAGGGTAGCCAGGTCTATGGCCTTCTCACAAGGCAAGTTGACACTAATAAGCACTTACTGTATGCCCAGCGTAAATGGTCTCTAGAGACCAAGTACTTTGACTCTGATACACATTTTTTAAATATTTATTTATTTATTTATTTAATGTATATGAGTACACTGTAGTTGTCTGCAGACATACCAGAAGAGAGCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCCCTGAGCCACCTCTCCAGCCCTCTGGTACACATTCTCAATGGCATGTGACAGCAGCCGTCAGACTGAAGTTGCTGCCCTTGCAATAACAGCTTTCTCTGGTGGTCAGGCTGGAGGAAGAGCTTGGGGTTGGGGTTGATGCTGCCCAACCCAGCCTCTATCCATCGCTCACCCCCATGCCTTCTAGGGAGACAAGAGTAACTCAGGAAGACCATCCACCCTATCCCTTGGGTCTGGCCCACAGAGGCTGTGAGCTACATCCTTGAGCCAACCACCAACCCCAACCTGGCAGCCCTGGGCTGAAATGGGAACAACAGAGGCCAGGAGGTCAAAGTGGCCTTGCTGCTCCCTGGTTACTGTGTGGCCACCCTCCCTAGTTCCCTCCTTAGAGCAGAGCAACCAGTTTTCCATGAGCCCAAAGGGCCCCCACCTCAGGTCAGCATCAGTCACGGCAACGAGTTCGGGGTCTACTCAACATCACCACCACTCAGGGGCCTCCTTGTCCTGAAGAGGAAACGGAGGCTCAGGAATGTGCTGAAATTCCTAGGGCCTAGAGAGTGGGGTGGGAAGGGCTACTGGTCAGGTTCAACCCCTCTGTCCAG
Seq C2 exon
GGACAGTGGCCATGGACCTGCAGAACACAGATTGCCGGCCCTCCCAGGGTGGCAGTGGCGGGGACGGCACAAAGCTGACTCTGCCCACCGAGAACGGCTCTGGTAGTCGACGCCCCAGCATCGCACCCGTTCTGGAGTTGGCAGACAGCTCAGCCCTGTTGCCCTGCGACCTGCTGAGTGACCAGTCAGAGGATGAGGTGACACCCTCGGACGACGAGGGGCTCTCTGTGGTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058740-Kcnt1:NM_001145403:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.614
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=PD(8.5=11.1)
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:
GCCTCCGACACCTGCTTCTAT
R:
TCCTCTGACTGGTCACTCAGC
Band lengths:
350-1718
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: