MmuINT0078030 @ mm10
Intron Retention
Gene
ENSMUSG00000020080 | Hkdc1
Description
hexokinase domain containing 1 [Source:MGI Symbol;Acc:MGI:2384910]
Coordinates
chr10:62405425-62408714:-
Coord C1 exon
chr10:62408615-62408714
Coord A exon
chr10:62405609-62408614
Coord C2 exon
chr10:62405425-62405608
Length
3006 bp
Sequences
Splice sites
5' ss Seq
TCGGTAACT
5' ss Score
6.25
3' ss Seq
CTCTCCGGTCCGCTCTCTAGGAA
3' ss Score
10.49
Exon sequences
Seq C1 exon
GACCTGGACGTGGACATCCTGGCTTTGGTTAACGACACTGTGGGGACCATGATGACTTGTGCTTATGATGATCCCAACTGTGAAGTCGGCGTTATCATCG
Seq A exon
GTAACTCAGTGGACTTGGGGTGGGGGGCAGTGAGATTGGGGCTGAGTTTGAGTAAAATATATATAAATATGAAGGGTGCTGCCATTTTTCTGCAGAGCAACACGGGGAGATGCGAAGCCTGCATCTATATCATCCTCCCTCCTTCCATCCTCCCTTCCTCTCTCTGTCTATCCATCCTCCCTCCCTCCATCCTCCCTTCCTCTCTCTATCCATCCTCCTTCCCTCTGTCCACTCATCCTCCCTCCCTCTATTCTCCTTCACTCTATCTCTCCTCCCTTCTTCCATTCTCCTTCCTTCCCTCTGTCTATCCATCCTCCCTCCCTCCCTCCCTCCACTCTCCCTCCCTCCCTCCCTCCACTCTCCCTCCCTCCCTCCCTCCTTCAATGAATTCATCTTCCCTTTCTCCCTCCCTCCTCCCTCCCTCTGTCCATCCATTCTCCCTCCATCTTCCTTCTCTCCTGTTGTAAAAAAAACAAAACAAAACAAAAAAAAAACTTAATAAATCCTGGTGTGGGGTTCCTTCCCACCTTAATTATTTGTGTTCCCAGATGAAAGACACATACAGCCTTTATATTTTAATCTGCCTTGTGCAGCATAGCAGTTGGGCAGCTGCCTGCTCTCCATGCTGTTAGAATCTACTTTCACATCGGTAACCCCAAATTATCACTTATTATTTGCTATGTTCCATCTGGGCTGCTCTTAATTCAATCGGGCAGCCCTCTGAGCCCTGTTCTCTTGGCCCTTAGACCATGGCTGCTCTGCTTGCTTCTCTAGCCCATTGCTGCTCTCCCTTCCTCCTTTTCTTCTGAAGTCCTTGGAATCTAAGACGCACTCCCCATATCTCTTCTCCCCAGCTATTGGCTGCTGGCATCTTTATTTACCAATCAGAATTAACTGGGGACAGGGTCCCTCAGGCTACATGCAAACTCCAAATCTTAAAGCCCAACACTTAACATTACAATAAACAGTAAAAGACAAAACCTCAACACACCTTCCTTGCATCCATCTTCCCCCTCCCTCCTCCCTTCCTCTGCCCTCCATCCTCTCTCTCTCCTCATCTCCATCCCCTGCCTCCTCCTTCCCTCCCTTGTCTCTTCATGCCGTGATGTGCTGGGTCTGTGCTCAGTGCTGGCTCACAGTGAATCTCCTTGGACCCTCCTGTGTATGTTGAGAAGGGCAATGGAAGCTGGACATACAACTCCCATCTGTAATCTCGGCCCTCATGGATTGGAGGCAGTAAGATGGCTCTAACTTTGATGCCAGCCTGGGCTACTTAGGGAGTTTCAGGCTAGCCTGGGCTTAAGACTGAGCTCCTATCTCAGTTGGACTGCAACTGTGAGACTGATCCCCAGGACAGGGGTAGACGTAGACAACCTGTCCAGAGGCCACTGAACTGTCGGCAAAGGCACAAAGGGGCCTGAGACATGAAAGTTAGAGGCTGCAGGTGTCCAGCTGGGGATCCCGGGAAAAGGCAGTTGGAGGCTCAGACATTCAAGTAATATTTGAGACAGGGTTTTATCTGTAGACCAGACTGTCCTTGAATTCACCATCCTCCTGTCTGGATTACAGGTGTCTGTGTGTGTGTGTGTGGGGGGGGGTGCATGCTAGTGTGTGCCACCATTTCTGGATCCTAGGCTGTTCCCAGATAGCCCATTTCTACCTCCCATTCCTCTGCCAGGGCTAGGGCACTTCTGATTTTCTAAAAGGGGTTCCTTGGCCTGGTTTTCCTAAGGGGTCTGACCACCCAAGCAGCTTGAAGCTCCTAACGATTCCAGGACCCCCACTTCACCCTGGGACAGGCACATGCCAGTCATGGTATCACCTGCTGTTGTCTCTCTGTCTGTCTTGGTTACTGTGTCTGAGACCACAGATTGGGTTTTTAAGCCTGAACATTGTCCCACACTTGTCTGCAAAGTTTTTTTTCCAAATATCAAATTAGAGTCTATTTTTAAAACATATCTCATTTTTTTTTTCTTATCGGCATTTAAAATGCCCAGCCCAGGGTACCAGCCAGGGAAGGAGACGTTAAATGAACAGAGGGATGAGAATTCAGAGCCGCTTTGCTGAGGCGCACGATTTCTCTTGCTTCAGGCACAGAATCTATGGGGTTTTGTTTTTGTTTCTTTAATTTTTCAGAGCTTTGCAAACACTCAGCTCATTCTACTTTTAAAATATTTTCACAATCCCCAGAAGGGTCCAAAAAGGCGTGCCCACTTGCAGCCATCCCTTAGCACTTGCCTGGAAGGCTTTCATACTCACTCAGCGTCAGTGTCTGGCTTTCTTAGCGGATACTTACCAACAAGGACCTCTGCTGAGAACCACTGATGGCAGCCATGAGCCAATGGGTGAATGGTGTCAGTGGCCGGAGACATGGCCCAGCCCTTAAGAGCCTGGAGATGACTTGAGTTCCATTCCCAGCATGCACGCTGGGTGGCTTACACTACCTGTAACTCCAGTTTCAGGGGACGTGACGCCCTATTCTGGATTCCACAGCTACCTGTCCTCACATATGCCCATACCCTCCCCTATAACTGAAAGAGAAATGTAAAGAACAGTTTTCGTGTCAGATAGAGAGGACTGAGGGAGTGTAGAGAAAGCATAAAGAAGCACTCTGACGGTTAGTTAGTTTGATTGATTGATTGATTGATTGATTGATATTTTTAAATTTATAAGGTTAGCTCACTCCCTCTTCCCTGGTATTCTTTTATAGTATTGATGCATACTCACAAGGGATAGATTCACAATTGACAACACTCATAGCTGCACACCGTCATGAGCTGAGGTGTGTGGGTACCACACGTGGACCTCCCCTGTGAGCCTCGTTGCCCAGGAGCTCAGGCTTGCCTGAGCCAGCTGCGGCTGCTGCGGTGGCAGCAGTGGTGGTGGCAGAGGGAAAACACCCTGCCACTCTGCCTGCCTTTCTCAGTACCTGGGTACTGAGTTCTCCCCGTTTCCCCAGCCAGGCCCCCTTTCCTCTTTGACCGTTCTCTCCGGTCCGCTCTCTAG
Seq C2 exon
GAACAGGCACCAACGCGTGTTACATGGAGGACATGAGCAACATCGACCTCGTGGAAGGGGACGAGGGAAGGATGTGTATCAACACGGAGTGGGGGGCCTTTGGGGACGATGGGGCTTTGGAGGACATCCGCACCGAGTTTGACAGAGAGCTGGACCTGGGCTCGCTCAACCCCGGGAAGCAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020080:ENSMUST00000020277:6
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:
PF0034916=Hexokinase_1=PD(11.2=67.6),PF0372711=Hexokinase_2=PU(3.3=23.5)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(25.4=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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