MmuINT0078021 @ mm9
Intron Retention
Gene
ENSMUSG00000020080 | Hkdc1
Description
hexokinase domain containing 1 [Source:MGI Symbol;Acc:MGI:2384910]
Coordinates
chr10:61857903-61858241:-
Coord C1 exon
chr10:61858146-61858241
Coord A exon
chr10:61858003-61858145
Coord C2 exon
chr10:61857903-61858002
Length
143 bp
Sequences
Splice sites
5' ss Seq
AACGTAGGC
5' ss Score
4.49
3' ss Seq
ACACTCTGCTTCCTTTGCAGGAG
3' ss Score
11.11
Exon sequences
Seq C1 exon
GGGACTCTAGTAGGGTGGACCAAAGGCTTCAAGGCCACCGACTGTGAAGGGGAGGACGTGGTGGACATGCTCAGAGAAGCCATCAAGAGGAGAAAC
Seq A exon
GTAGGCTATGGTGGGGAGGCTTACATTGGGCCTGCCCTCTTCCCCTGCCCTGCCATGATGCATATACCCAGGCCGTGGGACTTGGGCCTTGTTCTGTCTGCCTTGGGCCCAGGTGCCCCTCGTACACTCTGCTTCCTTTGCAG
Seq C2 exon
GAGTTTGACCTGGACATTGTTGCAATCGTGAACGACACAGTGGGGACCATGATGACCTGTGGCTATGAAGATCCCAGGTGTGAGATTGGCTTGATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020080-Hkdc1:NM_145419:13
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:
PF0034916=Hexokinase_1=FE(15.3=100)
A:
NA
C2:
PF0034916=Hexokinase_1=PD(11.3=67.6),PF0372711=Hexokinase_2=PU(3.3=23.5)
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:
GGGACTCTAGTAGGGTGGACC
R:
GCAATCAAGCCAATCTCACACC
Band lengths:
194-337
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: