MmuINT0085829 @ mm10
Intron Retention
Gene
ENSMUSG00000058740 | Kcnt1
Description
potassium channel, subfamily T, member 1 [Source:MGI Symbol;Acc:MGI:1924627]
Coordinates
chr2:25911026-25912717:+
Coord C1 exon
chr2:25911026-25911356
Coord A exon
chr2:25911357-25912654
Coord C2 exon
chr2:25912655-25912717
Length
1298 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
CTCTCCTATGTGTTCCATAGAGG
3' ss Score
8.67
Exon sequences
Seq C1 exon
TCTCAGATCTCGGTGAACATGGAGGACTGCGAGGATACTCGGGAGGCCAAGGGACCCTGGGGCACACGAGCTGCATCTGGCAGTGGCAGCACCCATGGCCGTCACGGGGGCAGTGCTGACCCAGTGGAGCACCCACTACTACGTCGCAAGAGCCTGCAGTGGGCCCGCAAGCTGAGTCGCAAGAGCACCAAGCAGGCAGGGAAGGCACCTGTGGCCACAGACTGGATCACCCAGCAGCGGCTCAGCCTGTACCGACGCTCAGAGCGCCAGGAGCTCTCAGAGCTGGTCAAGAACCGAATGAAGCACCTGGGACTGCCCACCACTGGCTATG
Seq A exon
GTAAGGGCTGGCAACAAGGCAGGGCCGGTAACAAGGCAGGGCCGGTAGGACCATAGCAGATCAGCTGATGGGCATCTCATATCTGCCTGACCCTTACAGCTGGGATGGCCCAGGTCTACCATGGCCTCCCTGGGCTTACTCAGCAAAGGGCAGAGGGCTGTCTGCAACCATGTCATATGGAGAAGGTTCAGAGTGACCCACAAACTGACTCATTTCTACCACTCTGGAGCCTCAGTTTCACACACACACCCCCCATAATGTAAGGGAAAGAGTAGAGAGCCAAGCCAGCTCCCCCAAAGCTCATCACCTTCAAGTGGGGTACAAGTTCAGTCTTCCCATCCCATGAGAGACATGAGAGGCAGGGAGTTGGCAGGGCCACAGCACATCCCTGCCCTGGTCATCAGAGACAAGAACAGCCTGCACACTTCTCAGTCCATCCCATGTCCCTCCCAAGGCAGTCGCCATAGCTCTGTTGCTCCAGAGTCAGCCTTAGGAGAACATCTGTGCAAACAGATTTTTGTAACTCCTTTCTCTCTGTGCCATTTTGGGGGTAACACCAGTGTGACTTTGATCAGGACTTCCTCTAGAGATGTTACCTCTTGATGAGGTCAGAGGGGCCCAGGATCTCTATTCTGACCTATGCCTCTCCCCACTCTTTCAGCATCTCAGTACTCAGCCGTTGCCAAGGCCCAACCTACATGCTAACGTCCATTGTCACCCTAGAGACTCCTCCTCTAAGTAGAAGGAGCTGCCCGGGCGTCACTGGGACTGGGCGTCATAGGGCATAGGCAGTACATATTGGGCATGCTGGGTATGTTCACAAGACAGTGGTAGACCTGGAGAAAGGCCTGGCTGGGGAAGACTGAGACCAAAGTTTTAAGGCCACCAGAGCCCTCCCCAGCCATGCATACAGTGTAGAGAATGTCCCGATAATGCCCTAGATCTAGTGGCCTCCTCAGTACTCCTGCCTGGGTGGGGATTCCGGCATTCACAAGCCTTTGCAAGTACGAGCAGATGCAAAGTGGAGCCCTATGACGACCTGCCCTGTGTGCCCTTTAGCCTCTGCAACCCAGCCCCTGCCAAAGCTTGCCAGATAAAGCCTAGATCCTCTTTGGCAACTGACTTGCTTCTGACGCCACTAGTGCTGGCCACCATTCTCCCAGCGTGGACGGTGTCTGCGTGCAGCTGGCCACTGTCCCCCACCCATTCTTCTGTGCCAGCGTGCCCACCCTGCCAATGCTTGCTGACCTGTCTCTCTCTCTCTGTTTCTGTCTGTGCCTCTCCTATGTGTTCCATAG
Seq C2 exon
AGGACGTAGCAAATTTAACAGCCAGTGATGTGATGAATCGGGTAAACCTGGGATATTTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058740:ENSMUST00000037580:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.644 A=NA C2=0.455
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:
AACATGGAGGACTGCGAGGAT
R:
CCGATTCATCACATCACTGGCT
Band lengths:
357-1655
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types