MmuINT0085483 @ mm10
Intron Retention
Gene
ENSMUSG00000037579 | Kcnh3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:MGI Symbol;Acc:MGI:1341723]
Coordinates
chr15:99228473-99229216:+
Coord C1 exon
chr15:99228473-99228716
Coord A exon
chr15:99228717-99229058
Coord C2 exon
chr15:99229059-99229216
Length
342 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
ACTGCCTATTTTCCACACAGATA
3' ss Score
9.57
Exon sequences
Seq C1 exon
GGAGTGTTTGGAGAGAAGCCAAATTTGCCTGAATATAAAGTCGCTGCTATCCGGAAGTCACCCTTTATCCTGCTGCACTGTGGGGCTCTGAGAGCCACCTGGGATGGCTTCATCCTGCTTGCCACACTCTACGTGGCAGTCACTGTGCCATACAGTGTGTGTGTGAGCACAGCACGGGAACCCAGTGCTGCCCGTGGCCCACCTAGTGTCTGTGACCTGGCTGTGGAGGTCCTCTTCATCTTAG
Seq A exon
GTATGTGAGGTCTGTGCCTGCTGTTCTGCTCAGGACCAGTCCTTCCCCTTTGGCTTTTGTAAGGATGACTCTGCGTGGTTTCCATTGCCCCACAAGTGTCTCCCTTGTTCTTCCCTGGTTTGTCACCCAGATCCCAAGGGTGTCTCTGCCAATAAAGGGTTCTAGAGCCTGATCTGAGAATAGCCTCAGCAAGCCTCAGTTTCTCCCTCTGTAAAATGGGTGCATGCTAGAGTTACAGCTTGGCCACAGATGTGAAAGGCCTGCGGTAGTAGGATCAAGTGTTGGACAGGTAGGTGTGGAGCTATCTCTTCCCCGATTGCTGACTGCCTATTTTCCACACAG
Seq C2 exon
ATATTGTGCTGAATTTTCGTACTACATTTGTGTCCAAGTCAGGCCAGGTGGTATTTGCCCCAAAGTCCATTTGCCTCCACTACGTCACCACCTGGTTCCTGCTGGATGTCATAGCAGCACTGCCCTTTGACCTACTACATGCCTTCAAGGTCAACGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037579:ENSMUST00000041415:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(4.8=14.6)
A:
NA
C2:
PF0052026=Ion_trans=FE(20.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTATCCGGAAGTCACCCTT
R:
ACGTTGACCTTGAAGGCATGT
Band lengths:
357-699
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