MmuINT0078010 @ mm9
Intron Retention
Gene
ENSMUSG00000025877 | Hk3
Description
hexokinase 3 [Source:MGI Symbol;Acc:MGI:2670962]
Coordinates
chr13:55115987-55116490:-
Coord C1 exon
chr13:55116334-55116490
Coord A exon
chr13:55116142-55116333
Coord C2 exon
chr13:55115987-55116141
Length
192 bp
Sequences
Splice sites
5' ss Seq
CCGGTGGGT
5' ss Score
7.85
3' ss Seq
ATGACCTGTCTGCCGTCTAGAGC
3' ss Score
5.62
Exon sequences
Seq C1 exon
GAATGCTTGCAGCAATTCAAGGTGACCAGGACACAGTTGCAGCAGATCCAAGCCAGTCTCCTGTGCTCCATGGAGCAGGCACTGAAGGGACAGGACAGTCCCGCTCCTTCTGTCCGGATGCTGCCCACATACGTGAGGTCCACACCACACGGCACCG
Seq A exon
GTGGGTAACACAGACTCGGATGGGCGGCCAGACACGGGGAATGTGCTCTGACTGGGGGATGGGGGAAGTTCCTTACTTCTGTCCACCATCTCTGAGGCCCTTTTCAATGGCCCTCTCAGACTCTGGAAGCTTTCCTGGGAGGCAGGCAGCTTTGCCAACTGCATGTCTTTCTATGACCTGTCTGCCGTCTAG
Seq C2 exon
AGCAAGGGGATTTCCTGGTGCTGGAGCTGGGGGCCACAGGAGCATCACTACGTGTGTTGTGGGTAACACTGACAGGCACCAAAGAATGCCGGGTGGAGCCCAGGAGCCGGGAGTTTGTGATTCCTCAAGAGGTGATCCTAGGTGCTGGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025877-Hk3:NM_001033245:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.215 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=PU(16.4=96.7)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGACACAGTTGCAGCAGAT
R:
GAATCACAAACTCCCGGCTCC
Band lengths:
254-446
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: