MmuINT0085514 @ mm9
Intron Retention
Gene
ENSMUSG00000001901 | Kcnh6
Description
potassium voltage-gated channel, subfamily H (eag-related), member 6 [Source:MGI Symbol;Acc:MGI:2684139]
Coordinates
chr11:105869517-105870527:+
Coord C1 exon
chr11:105869517-105869592
Coord A exon
chr11:105869593-105870296
Coord C2 exon
chr11:105870297-105870527
Length
704 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
CCTTTTTCTTCCCACCCCAGGTC
3' ss Score
11.2
Exon sequences
Seq C1 exon
ATGCCAGTCCGCAGGGGCCACGTTGCTCCCCAAAACACTTACTTGGACACCATCATCCGCAAGTTTGAGGGCCAGA
Seq A exon
GTAAGTGTGAGGTTTGGGGGTGTGGGGGACTCTCTGCAGTACGGGTTGGATGGCAGGAGCAGCCAAACTCTTCACTAACTTCTGATGGGGTAAAAGAAATGGCAGGGCTGGGGGCTGGGGGGGGGGGTAGATTCTGAATACAAAATCTTTCGTTTTGATGTCCCCAACACCTCCTCCATATGTGCTGTGTCTTGGGCATAATGCCACTCTTCTACCTGCTCACAGCAGTTTTCTTGGTGTTACAAACCCTGGCCTGCCCTCTCAGTCACTGCCCACTTACCCCTCCAGACCATTCATGCCTCTCCTAGAGGTTTGCCTGACTTCCTTCTTTTCACCCACAGAGCAGGTCTGACTCCCTGGTCACAGTCCTGCTTTCTGGTCTGGATCCCAACTATTATTCCAGGAGTTCTGGGGTCTTCCTCCCACTCTACTGACCCTAGCCCCCAAGCTTGGTTCCCACACCCCTACTTTTCTGCTCCCTGCCTCCTTCATGCCCCTCTGTGCTCCCAGAAGGAATGACCTTTCCCCAGGACTCTTGGTTCTTCCACCCTCCCTTGCTCTGTCCTCCACCTCCCTCATTCTGGCCCCTGCCTGCTCCTGTGTATAAATCCCCTCCTTGGCTGCCACCGGTCCCTGTAATCTTTCTCTCCCAACTACCCACTCCTGGCTGCCACGGTCTTCCTACCTTTTTCTTCCCACCCCAG
Seq C2 exon
GTCGTAAGTTCCTGATTGCCAATGCACAGATGGAGAACTGTGCCATCATCTACTGCAATGATGGCTTCTGCGAACTCTTCGGCTACTCCCGTGTGGAGGTGATGCAGCGACCCTGTACCTGTGACTTCCTCACTGGCCCGAACACTCCGAGCAGTGCTGTGTCCCGCCTGGCGCAGGCCCTGCTTGGGGCTGAAGAGTGCAAGGTGGACATCCTCTACTATCGCAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001901-Kcnh6:NM_001037712:1
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=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134261=PAS_9=PU(70.1=96.2)
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:
ACGTTGCTCCCCAAAACACTT
R:
TCCTTGCGATAGTAGAGGATGTCC
Band lengths:
286-990
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: