MmuINT0085523 @ mm10
Intron Retention
Gene
ENSMUSG00000001901 | Kcnh6
Description
potassium voltage-gated channel, subfamily H (eag-related), member 6 [Source:MGI Symbol;Acc:MGI:2684139]
Coordinates
chr11:106020122-106020743:+
Coord C1 exon
chr11:106020122-106020321
Coord A exon
chr11:106020322-106020490
Coord C2 exon
chr11:106020491-106020743
Length
169 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
GCCATACCCCACACCCGCAGGTG
3' ss Score
7.7
Exon sequences
Seq C1 exon
CACTTATGTACGCCAGCATCTTTGGCAACGTGTCGGCCATCATCCAGCGCCTGTACTCAGGCACGGCTCGCTACCACACTCAGATGCTGCGGGTCAAGGAGTTCATCCGCTTCCACCAGATCCCCAACCCACTGAGGCAGCGCCTGGAAGAGTATTTCCAGCACGCCTGGTCCTACACCAATGGCATCGACATGAACGCG
Seq A exon
GTGAGCCCTGCAGCCCTGATGGGGAGTGGGTGGGCCACCAGCTGCCTCATGCCCTAGGGGAGATCCAGAGCCCGGTGCAGTGTGCCCCCGCTCCCCACCCTTCTACCCAAACACAACACCCACAGCCCTTGCTGCGCCCGGAGAGACTCGCCATACCCCACACCCGCAG
Seq C2 exon
GTGCTGAAAGGCTTCCCTGAGTGCCTGCAGGCGGACATCTGCCTGCACCTGCACCGCGCTCTGTTGCAGCACTGCCCCGCCTTCCGCGGCGCCAGCAAGGGGTGCCTGCGCGCGCTCGCCGTCAAGTTCAAGACCACGCACGCGCCGCCTGGGGACACGCTGGTGCACCTGGGCGACGTGCTTTCCACTCTCTACTTCATCTCCCGCGGCTCCATCGAGATCCTGCGCGATGACGTGGTCGTGGCCATTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001901:ENSMUST00000001965:7
Average complexity
IR
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(4.8=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(45.5=47.1)
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:
GAGTTCATCCGCTTCCACCAG
R:
TGCGTGGTCTTGAACTTGACG
Band lengths:
242-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types