MmuINT0085486 @ mm10
Intron Retention
Gene
ENSMUSG00000037579 | Kcnh3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:MGI Symbol;Acc:MGI:1341723]
Coordinates
chr15:99232693-99233448:+
Coord C1 exon
chr15:99232693-99233004
Coord A exon
chr15:99233005-99233248
Coord C2 exon
chr15:99233249-99233448
Length
244 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCCTCTTTATTCTTGACCAGCTC
3' ss Score
6.7
Exon sequences
Seq C1 exon
GCTGGCTGCAGGAGCTGGCACGCAGGCTGGAGACCCCCTACTACCTGGTGAGCCGGAGTCCAGATGGAGGGAACAGCTCTGGCCAGAGTGAAAACTGCAGCAGCAGCAGCAGCAGCAGTGGCAGCGGTGGCGGCAGAGGCAGCGAAGCCAATGGGACCGGGCTGGAGCTGCTGGGTGGCCCGTCCCTACGCAGCGCCTACATCACCTCCCTGTACTTCGCGCTCAGCAGTCTCACCAGTGTGGGCTTCGGCAACGTGTCCGCTAACACAGACACGGAGAAGATCTTCTCCATCTGCACCATGCTTATCGGAG
Seq A exon
GTGAGGCTGAGCCGAGACTTTCGGGGGGGGGGGCCCCTCCATGCCCACCTCTCTCAGGGTTCCCACAACTGGAGATCTAGGGTCTACCTTTGGTGATCCATCCACCAGACCAGGGCAGGGAGAGATGCCCATGCACACTGCCTAGGAACATGGCGATAGGCAGGGAGCAGAAGACAGGTCTGCTAGCACCACATCAGGCCTGGCCAGGTCTGGAGGGTGACCCTTCCTCTTTATTCTTGACCAG
Seq C2 exon
CTCTAATGCATGCAGTGGTGTTTGGGAATGTGACGGCCATCATCCAGCGCATGTATGCTCGCCGCTTTCTGTACCACAGCCGCACTCGTGACCTGCGAGACTACATCCGCATCCACCGCATCCCCAAACCCCTCAAACAACGAATGCTGGAGTACTTCCAAGCCACCTGGGCTGTGAACAATGGCATCGATACCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037579:ENSMUST00000041415:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.210 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(41.8=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.0=14.9)
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:
GGAGTCCAGATGGAGGGAACA
R:
CCGTCACATTCCCAAACACCA
Band lengths:
294-538
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