MmuINT0085487 @ mm9
Intron Retention
Gene
ENSMUSG00000037579 | Kcnh3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:MGI Symbol;Acc:MGI:1341723]
Coordinates
chr15:99063680-99064547:+
Coord C1 exon
chr15:99063680-99063879
Coord A exon
chr15:99063880-99064297
Coord C2 exon
chr15:99064298-99064547
Length
418 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGG
5' ss Score
4.48
3' ss Seq
CCCCTACTTCCTGCTTGCAGCTG
3' ss Score
10.37
Exon sequences
Seq C1 exon
CTCTAATGCATGCAGTGGTGTTTGGGAATGTGACGGCCATCATCCAGCGCATGTATGCTCGCCGCTTTCTGTACCACAGCCGCACTCGTGACCTGCGAGACTACATCCGCATCCACCGCATCCCCAAACCCCTCAAACAACGAATGCTGGAGTACTTCCAAGCCACCTGGGCTGTGAACAATGGCATCGATACCACTGAG
Seq A exon
GTGTGGTGGCCTCCTAGGCTGCTTCTAGACTTTGACATCCTCCAGGGGTTTGTGCTTGGTCTCCGCGATCGATTGGGAGTGGAGGTGTGGGTGGGTAGGAAATGCAGAAATACGCTTTTCCCTGTTCTTTTACAGAGACAGCACTCATACATGAGACAGAGCAGAACCCCAGTTAGGTCTGTGGGCTCTGTGCTCACTGACATCAGAGTCTGAGGCCAGGAGGAGGAAAGGGGCTAGGAGGGGGCTGCAAAGAGCGTTCTTCCCTTGACTGTACCCTCTGCACCTTAATGCTGGGTGGGAGGCTTGCACCACCTTCCATTCCCCCTCTTGCTTCTGAGGTTGGCAATGATGGCCAGGGGCTGGCTGAAAGGGGGCTCCTCTTCTGCCACCTCAGCCCTCCCCTACTTCCTGCTTGCAG
Seq C2 exon
CTGCTGCAGAGCCTCCCGGATGAGCTTCGTGCAGACATCGCCATGCACCTGCACAAGGAAGTCCTGCAGCTGCCGCTGTTCGAGGCCGCCAGCCGTGGCTGCCTGCGGGCGCTGTCCCTGGCCCTGAGGCCGGCCTTCTGCACGCCGGGCGAGTACCTCATTCACCAAGGCGATGCTCTCCAGGCCCTCTATTTTGTCTGCTCGGGTTCCATGGAGGTCCTCAAAGGTGGCACCGTGCTCGCCATTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037579-Kcnh3:NM_010601:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.0=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(45.5=47.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCATCATCCAGCGCATGTAT
R:
GAGCATCGCCTTGGTGAATGA
Band lengths:
343-761
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: