MmuINT0078008 @ mm10
Intron Retention
Gene
ENSMUSG00000025877 | Hk3
Description
hexokinase 3 [Source:MGI Symbol;Acc:MGI:2670962]
Coordinates
chr13:55005985-55006636:-
Coord C1 exon
chr13:55006403-55006636
Coord A exon
chr13:55006316-55006402
Coord C2 exon
chr13:55005985-55006315
Length
87 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
TCAGCCGCTTCCCCTCACAGCTT
3' ss Score
8.77
Exon sequences
Seq C1 exon
TGATAGCCTGGCCCTGCGTCAGGTCCGAGCCATCCTGGAAGATCTGGGGCTGACTCTGACATCTGATGACGCCTTGATGGTCCTGGAAGTGTGCCAGGCTGTGTCTCGCAGGGCTGCCCAACTCTGTGGGGCAGGTGTGGCTGCCGTGGTGGAGAAGATTCGGGAGAACCGGGGCCTGCAGGAGCTGACAGTGTCTGTGGGAGTAGATGGGACACTCTACAAGCTACATCCTCA
Seq A exon
GTGAGTCTGCGTAGGTGGGTCAGGACGGGAGGCACAGCCAGGCGGGCGGGGCTGGGCTGGGCTCACCTCAGCCGCTTCCCCTCACAG
Seq C2 exon
CTTCTCCAAGCTGGTGTCGGCAACAGTCCGGAAGCTAGCCCCTCAGTGCACCGTCACCTTTTTGCAGTCGGAGGATGGGTCTGGCAAAGGCGCAGCTTTGGTTACTGCTGTTGCTTGTCGCCTTACCCAGATGGCCCACGTCTGAGGAAATCTCCAGGAACGAAGCAATCTCATTGGACTGAGGCTTCAGCCTACCCTGATCCTCAGCCACCCACAACTCCCAAAGAAACCCGTGTGTGGTCCCCTTATAGCCGTCTGCCCACACCTAATGGCTTTGCAAGAGAAGCGACACTCCGGTTAGCAATATATATATATAATTTATTTACATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025877:ENSMUST00000052949:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(32.5=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(16.7=81.6)
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:
CTGCCGTGGTGGAGAAGATTC
R:
CCCATCCTCCGACTGCAAAAA
Band lengths:
173-260
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