MmuINT0078033 @ mm10
Intron Retention
Gene
ENSMUSG00000020080 | Hkdc1
Description
hexokinase domain containing 1 [Source:MGI Symbol;Acc:MGI:2384910]
Coordinates
chr10:62400192-62401957:-
Coord C1 exon
chr10:62401724-62401957
Coord A exon
chr10:62400497-62401723
Coord C2 exon
chr10:62400192-62400496
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:ENSMUST00000020277:9
Average complexity
IR
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
Other Skipping 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
- 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