MmuINT0085461 @ mm9
Intron Retention
Gene
ENSMUSG00000038319 | Kcnh2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:MGI Symbol;Acc:MGI:1341722]
Coordinates
chr5:23828473-23829082:-
Coord C1 exon
chr5:23828889-23829082
Coord A exon
chr5:23828573-23828888
Coord C2 exon
chr5:23828473-23828572
Length
316 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GACTGTTCTCTTCGTTGCAGACC
3' ss Score
10.34
Exon sequences
Seq C1 exon
GGAAGAACGACATCTTTGGAGAGCCTCTGAACCTATATGCCCGTCCTGGAAAGTCCAATGGGGATGTGCGGGCCCTCACGTACTGTGACCTGCACAAGATCCATCGTGATGACTTGCTGGAGGTGTTGGACATGTATCCCGAGTTCTCAGATCACTTTTGGTCTAGCCTGGAGATCACCTTCAACCTTCGAGAT
Seq A exon
GTGAGTGGGCCATCTCAAGAGCTGCCTTTATCCCCAAGAGAGCTGATGATTGACAGGCTGCCCCTTCCCTGTGACTGTGGAAAACAGCTTCTTTGCCTGCTTTTCTGTCTTTTTACAGTCAGATCAGGCTATGGAAGTACCAACCTCAGGGTGTTGGGGGAAAGTGACACAGGGTGGGATGGGGGTAGGGAAAATTCTTCCCCACAGCCCCACCTCCCTAGGTTAAGGAAGGGGTGCAGTTGCCTGCCCCACCCCCATATTCCAGGACAGCCAGGCAGGATGGACCTAAGGGCTCTGACTGTTCTCTTCGTTGCAG
Seq C2 exon
ACCAACATGATTCCTGGCTCCCCAGGCAGTGCAGAACTAGAGAGCGGCTTTAACAGGCAACGCAAGCGCAAACTGTCATTCCGCAGGCGTACAGACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038319-Kcnh2:NM_013569:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(53.4=72.3)
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:
GGAAGAACGACATCTTTGGAGAGC
R:
CCTTGTCTGTACGCCTGCG
Band lengths:
294-610
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: