MmuINT0085471 @ mm9
Intron Retention
Gene
ENSMUSG00000038319 | Kcnh2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:MGI Symbol;Acc:MGI:1341722]
Coordinates
chr5:23830774-23831699:-
Coord C1 exon
chr5:23831312-23831699
Coord A exon
chr5:23830974-23831311
Coord C2 exon
chr5:23830774-23830973
Length
338 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CCACTCACCCACGCCCCCAGCCC
3' ss Score
4.93
Exon sequences
Seq C1 exon
CTGATCGGGCTGCTGAAAACTGCGAGGCTGCTGCGGCTGGTGCGCGTGGCTCGGAAGCTGGACCGCTACTCGGAGTACGGGGCAGCAGTGCTCTTCCTGCTCATGTGCACCTTCGCCCTCATTGCGCACTGGTTGGCCTGCATCTGGTACGCGATCGGCAACATGGAACAGCCTCACATGGACTCACACATCGGCTGGCTGCACAACTTGGGCGACCAGATCGGCAAGCCCTACAACAGCAGCGGCCTGGGAGGCCCCTCCATCAAGGACAAGTATGTCACAGCGCTCTACTTCACCTTCAGCAGCCTCACCAGCGTGGGCTTTGGCAATGTCTCTCCCAACACCAACTCAGAGAAGATCTTCTCCATCTGTGTCATGCTCATTGGCT
Seq A exon
GTGAGTGCGTCCTGGAGGCGGGTGAGGGGTGGAGCCATGGCTGGATAGAAATGGTAGTGAAAGTCCTAGGATGGAGCAAAGTGGCAGTCGGACCTCCCCGCCCCGCCCCCTCGTCCCTTCCTAGAGTCCTGGGCTCACAGTTGAGTTTGGAGGCTGGGACACCAGGGCAGGAAATGGTGAAGGTTGGCGTGTGTTTGAGCATGTGTATGTCCACTCTCAGACTGAGTCGTGACCGGACCGCGAGTGTCGTTGACCTGGTGCGGGGCCTGAGCAGAGGGTCCCCGTGGGCGGGCGGGGTCCCTGCGGATGCTGACGGCCCCACTCACCCACGCCCCCAG
Seq C2 exon
CCCTCATGTATGCCAGCATCTTCGGCAACGTGTCCGCCATCATCCAGCGGCTGTACTCGGGCACGGCCCGCTACCACACACAGATGCTCCGGGTGCGGGAGTTTATCCGCTTTCACCAGATTCCCAACCCATTACGCCAGCGCCTCGAGGAGTACTTCCAGCATGCTTGGTCCTACACCAATGGCATCGACATGAACGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038319-Kcnh2:NM_013569:7
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=FE(62.6=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.9=14.9)
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:
CAGCCTCACATGGACTCACAC
R:
TTGGGAATCTGGTGAAAGCGG
Band lengths:
347-685
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: