MmuINT0078033 @ mm9
Intron Retention
Gene
ENSMUSG00000020080 | Hkdc1
Description
hexokinase domain containing 1 [Source:MGI Symbol;Acc:MGI:2384910]
Coordinates
chr10:61862940-61864705:-
Coord C1 exon
chr10:61864472-61864705
Coord A exon
chr10:61863245-61864471
Coord C2 exon
chr10:61862940-61863244
Length
1227 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ACTGTCACCTCTACCTCCAGGTA
3' ss Score
10.75
Exon sequences
Seq C1 exon
GAGTAAAGAAGGCCTGGCCAACACTCGAGAGATCCTGGTGGATTTGGGCCTGGAGCCCTCTGAGTCAGACTGCATCGCTGTCCAGCACGTGTGCACCATCGTCTCTTTTCGCTCAGCCAATCTCTGCGCAGCGGCTCTGGCAACCATCCTGACTCGACTCCGAGAGAACAAGAAGCTGGCCCGGCTCCGCACCACAGTGGGCATGGATGGAACTCTCTACAAAACACACCCTCA
Seq A exon
GTAAGTGCCACCCGCCAACCCGTATCCCAACGTGGGTCGTCCCTGGAGCTGAGCCCCGGTGCTCCCTCGGGTCTGTGTTACATATCTGTGCAGTTGGAGTCATCTAGTTCTAAGATTCCAAGGGAAGAGTGAGCCAAGTGTGCGTTTACACAGCTGGCCGGGTGCTCTGGGGAATCACTCACAGAGAGACGGGGCTGTTAGCTGGGTATGGTGGTGCAGACCAGTAATTACAGAACTCAGAGGGGCTGACCAGCAGCAGGTTCTCTGTCACGGATGGAGGGCAGAGCAATGGAGATTTCCACTGTAAAGGGGCAGGAAGAATGCCATCTTGAGGTCAGTATGGACTATGCAGCAAGACCTATCTAAAAAAAAAATCTGTTAAAACTATTGCCTAATTAGAAAGACTGTCTGTCTATCTGTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCCACTCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCCATCCATCCACCCATCCATCCATCCACCTACCCATCCATCCACCCACCTTCTCTTCCCTCCCTCCATCCATCCACCCACCTTCCTTGCATGCATTGGTGTGTTCATTCATTCATCTCTCATGTGTCTGTCTGTCCTTCTGCCTGCCTATCTGTCTATTTATGTGTGTTCCTACCTTTCCATCTGTCATCTTCCTAACCATCTTTCTCTCCACTATCTAGGTAATACCCATGGCATAGCAATACTGAAAAGTCAGAGATACCCCACTATTGATGGTGAAAATCACTGATGGCAGAGGTCGCCAGATCCCACTAGGATGGCATAGGGAAATGAAAATTCTTTCAAGGGATTCATAGTGAAAGACTCATTAGCTATTGGAGACTACACTGGCGTGTGCACTCTAGAAGGGACTGAGAGAATAAATCCTTTGCCACAGACAAAGGCGACATCTACCACCACATTGGTCCTTCATGCCCTCTCAGCACTTCCCTTAGCTTCCAAAGTATCCTTTCAACTGTCTTAGTTTGTCATCGTTCATCTGCCACTATCCAACAAGCAGGGTCCCCCGGGACCCACCACCCACTAGCCCTGTGTCCATTCCCACTGGGCAGACCCAGCTGAAAAGACTGCTCACTATCTGACTGTCACCTCTACCTCCAG
Seq C2 exon
GTACCCCAAACGCCTACACAAGGTGGTGAGGAGACTGGTCCCAAACTGTGATGTCCGCTTCCTCCTGTCAGAGAGTGGAAGCACCAAGGGGGCCGCCATGGTGACCGCAGTGGCCTCTCGGGTACAGGCCCAGCGCAAGCAGATCGACAAGGTGCTGGCTTTGTTCCAGTTGACCCGAGAGCAACTCCTGGGTGTGCGGGACAAGATGCGGGCTGAACTAGAGTACGGGCTGAAGAAAAAGACCCACTCTCTGGCTACCGTGAAGATGCTTCCCACCTATGTCTATGGGATGCCGGATGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020080-Hkdc1:NM_145419:9
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:
PF0372711=Hexokinase_2=FE(32.5=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(16.7=38.8),PF0034916=Hexokinase_1=PU(29.6=58.3)
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:
CTGAGTCAGACTGCATCGCTG
R:
GGGTCAACTGGAACAAAGCCA
Band lengths:
351-1578
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: