MmuINT0085464 @ mm9
Intron Retention
Gene
ENSMUSG00000038319 | Kcnh2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:MGI Symbol;Acc:MGI:1341722]
Coordinates
chr5:23827063-23827640:-
Coord C1 exon
chr5:23827454-23827640
Coord A exon
chr5:23827241-23827453
Coord C2 exon
chr5:23827063-23827240
Length
213 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
ATCTTCCTTCCTTGCCCCAGGCT
3' ss Score
8.72
Exon sequences
Seq C1 exon
GTGCCTTCTCTGGGGTGTCCAATATTTTCAGCTTCTGGGGGGACAGTCGGGGGCGCCAGTACCAGGAGTTGCCTCGATGCCCTGCCCCTGCCCCCAGCCTCCTCAACATCCCCTTGTCTAGCCCTGGTCGGCGATCCCGGGGTGATGTGGAGAGCAGGCTGGACGCACTCCAGAGACAGCTGAACAG
Seq A exon
GTAAAGATGGGTGCCCAGGGAATGGGCACGGGGTAGGCTGCACTGTGGGGGAACTTGGGGCCTCTTTGGGTTTCTGCTGATGTTTCAGGGGTGCTCTGTCTAGGACTGTCTGTGCCAGGCAGGTGGACCCTCTCCTTCCTCAGCTGCATGAGGAGGGAGCCTAGAGTGAACCAGCTATCTCCACTTCTGAGAAATCTTCCTTCCTTGCCCCAG
Seq C2 exon
GCTGGAAACCCGGCTAAGTGCAGACATGGCCACTGTCCTACAGCTGCTACAGAGGCAAATGACCCTGGTCCCTCCTGCCTACAGTGCTGTGACCACCCCTGGGCCCGGCCCCACTTCCGCATCCCCTTTGTTGCCTGTCGGCCCTGTCCCCACTCTCACCCTGGACTCGCTTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038319-Kcnh2:NM_013569:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.583
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGTACCAGGAGTTGCCTCGAT
R:
GAAAGCGAGTCCAGGGTGAGA
Band lengths:
304-517
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: