MmuINT0085474 @ mm9
Intron Retention
Gene
ENSMUSG00000037579 | Kcnh3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:MGI Symbol;Acc:MGI:1341723]
Coordinates
chr15:99055407-99056972:+
Coord C1 exon
chr15:99055407-99055482
Coord A exon
chr15:99055483-99056738
Coord C2 exon
chr15:99056739-99056972
Length
1256 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
CCCTTCGCATTCTCTTGCAGACA
3' ss Score
11.94
Exon sequences
Seq C1 exon
ATGCCGGCCATGCGGGGGCTCCTGGCGCCGCAGAACACCTTCCTGGACACCATCGCCACCCGCTTCGACGGGACGC
Seq A exon
GTGAGTCAGGCCCTAGCTCCCTAGCTTCCGGGCAGTAATCCACTGTCGGAACTGCCACCTGCTGCTTGGTGCCCACCAGCCATCCCCTTCCTCACCCCTCTTGAAGCTAGGGCCATTCTCTCCTTCCAGTAAGTGAAGGTTTCCCGGAGGTTTTCAGGGTCAATACTGTAAGATGTCCCTAGGTGCGGGACCGGGATGAGTCAATCTGATCCAGCCTGTCTTATCCTCAGACCTGGCGCGGTTGCAAAGGCCGAGTCGGGTGAAGCGCGGAACCAGTCCTGGTGGACAGCGCAGAGGGCTCACAGAGCCCAGATTTAGAAATAAGATTTGCAAAGGAAGGTAGAGTAGGCGGGATTCAGCAGAGAACTGTGTCTGCAAGCGTATCGCACAGTCTAAACCCGTCGCTTGGAATGCCCACCCGGCCCCAAAGAAGCTGAGCTCCTCTGAGCTCGGGAGACTCACATCCGGACTGGGGAAGTTTGGAAAAGGCAACTTGAGCTTCCAGATTCTGAGTTCCTCTGGCTCTGAACACAGGGAAGTCGTGAAAACAGGGTCCCTCCCCCTCTCGCTCCAGTGGGGCTTCCCAGTTCTGACAAGCGTTCTCCCTCCTGTTGTAGACAGCCTGTAGGAACTCATCACAGAGCTCCCCCACCCCCCAGGCTTCTCCATCTGCTTTGGGCTTGAAGCCTGCTGATTCAGCACCCCTCACTCCCCAATACATTCTTGGCTCCAGGCTCTGTTGTTCAACCACTATCCACACACCGCCATTCTTGATGGCGTTCAATAGTCCCTGAGCCAGGGTGTGCAGCGAACGGGGCATCGGATGCATGGTGGCCTGCTTCCCAGACCAAGCGGTTCTCCGTGGGAGGAGCCACACAGCCAGCCTAGTTATCTAGTTAAGGGATGAACCTGGCAGAAGCCGAGGTGGGCCCAGAGCAGGTGGTACAGTCTTTTGGAAATCTCCAGCCCCACCCCTTACTCAGACTGCTCAGGACACTGCACAGCAGTGCCTACACAGGACTGCGTTCAGCAGTCCGCACTGACATGGTCCTCTCATGCACTCCTATGCATTCAGCTGGGGACCCTCCCTTGAGGACACCGATACCCAGGTGTGCATGCTAAGCCTCATTCATGAACCGGTCATGACCAGCATACACAGCTTCCTTTGGGGACGAAACCCCACGCTTTGGTGGGGTTTGCAAGTAGTTTGAGAAGCGGGGCTGGTAGGTGAAGGTGCCCTTCGCATTCTCTTGCAG
Seq C2 exon
ACAGCAACTTCGTGCTGGGCAACGCCCAGGTGGCGGGGCTCTTCCCTGTGGTCTACTGCTCCGATGGCTTCTGTGACCTCACGGGTTTCTCCAGAGCTGAGGTCATGCAGCGGGGCTGTGCCTGCTCCTTCCTCTATGGGCCAGACACCAGTGAGCTGGTCCGCCAACAGATCCGAAAGGCCCTAGATGAGCACAAAGAATTCAAGGCTGAACTGATCCTGTACCGGAAGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037579-Kcnh3:NM_010601:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134261=PAS_9=PU(70.1=94.9),PF051168=S6PP=PU(60.2=67.1)
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:
GCGCCGCAGAACACCTTC
R:
CACTCTTCCGGTACAGGATCAG
Band lengths:
286-1542
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: