MmuINT0078023 @ mm10
Intron Retention
Gene
ENSMUSG00000020080 | Hkdc1
Description
hexokinase domain containing 1 [Source:MGI Symbol;Acc:MGI:2384910]
Coordinates
chr10:62391311-62393870:-
Coord C1 exon
chr10:62393687-62393870
Coord A exon
chr10:62391467-62393686
Coord C2 exon
chr10:62391311-62391466
Length
2220 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
ATCCACCTCTCCCCAAACAGATA
3' ss Score
8.85
Exon sequences
Seq C1 exon
GGACAGGAAGCAACGTGTGCTACATGGAGGAAATGAGGAACATCGAGCTGGTGGATGGGGACGAAGGCCGGATGTGCGTCAACACGGAGTGGGGCGGGTTTGGTGACAATGGCTGCATCGATGACATCCGCACCCAGTATGACAAGGAGGTGGATGAGGGCTCCCTGAACGCCGGCAAGCAGAG
Seq A exon
GTGAGAAGGCCTTGTGGTGTGTCGTGTGTGAAGAGAGCATGTAAATGTGATTCTGGGGGTGGGGGGCTGTCGTGTGATCCTGTGGGCTTTTCTTCAACCCCTTTCCTTCCAAGTAACGACCGGGCATCTCTATGCCTGCTCTATCCCCCTTTGGCTCCCAAATAAAAGGCACGGAGGCCCAGACCTAATGAATTTATTAATAAGCTGCATGCTAGGCAGATGCTCATCTATTCTAACCTCATTGGCTGCTCACTTCCCAGCCTCGAGGTCCTTTACTCTGAGCCGTCCCTGGCTCGCTCTGTCCCATGTGTGTCTTCATGGAGACTCACGTGATGATCTCCTGGTCCATCTCCTTCACCTCTTCCTCCTCATGGTCACTCTCTTATCGAGACCTCATGGGAGGGCTGGAGAGATGGCTCAGCTGTTAAGAGCACCGACTGCTCTTCTGAAGGTCCCGAGTTCAAATCCCAGCAACCACGTGGTGGCTCACAACCATCTGTAATGGGATCTGACGCCCTCGTCTGGTGTGTCTGAAGACAGCTACAGTGTACTTATATATAATAAATAAATAAATCTTAAAAAAAAAGATTAAAGCACGCCATTGATCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACACAGTGAGTTCCAGGACAGTCAGGGCTATACAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAGATTAAAGAAAAAAGACCTCATGGGAAATCTTCCCGTTCTCTTTCTTCTCTCTCCTTCTCTCTTCTCTTTTTGCTTGGAACCTCCAGACTGGGGTCAGAAGTCCCGCTCTGTGTCTTCCTGCCCAGCTATAGACTGAATAAGCTCTTTATTAACCAATCAGAGGTGATGGAAAAGAAGAATTTTTACACATCATTGAGACAGGAAATGCTCCACATAACAGGCCAATATCAGGACTGCTACCAGATCTCTGGGCACAGCAAACAGCATCTGAATACACAGTGTACAACACCGTGCCCTGGCAGAAGCCATTTTGCCAAACCCAGGGAGCAGGTCTGTTCTGTGGCATCAACCTGGCAGCTTTCGCTATGCTTATATCACTGAACCAGATGCCAGAACAGGGAATAAAAGAAGGCCATCTTTATGTTTCTGACAGGAGAGGAAAGGGTCCCTTTTCTAATTACCATAAGGTACTTTGAAGGCTTGTGGGCTCTGGAAGCCAACCAGAAGCTGTCAGAATGTCTGCTTGCAGAGTGCCCGGGTACCACAGAGCAGGGGTGTGGGTCCATAAGGTGGGCTTTATGAGGTCCCATTTAGAGGTCAAGGTCCTTGGCCTTTTAAAGTCAGTGTATCCTAAGGGGTGGGAAAGGGGTCCCTAGGATGGATGGGAAGGCTGACCTTGACATGGTATCACATCTTATCATGGGCCACAAGCCTTTGTAAGGTACACTGCAATTACTAACTACTGAAAAGACAGAAAATAATGAACGGCTTCTAGACACCTTATGGTAGATTTCCACCTGCATTCTGATGCTCACTGGAAGAGAGGGCTAGACTGAGGTGAAGCTAGTGTATGAGGCCCCCAGGAGTAAGACTGGGCCCTTCCCTTGGGACAGGGTTAGGACAGTGTTCTGCAAATGGCCAGAGAGTGTTTTAGATCTGGTGAGATGCGTCCCAGTTAAGCTTGGGTTTATAATATATAAACCGAGGGGAAGCTGAGATTTATCACGATGGCAAACAAGCAAGTAGAGGCTGAGCACCTCAGAAATGTGCTAAGATCAGGCTCAAGGATACGTTTCGCTGAGAACATTGTCTAGGCAGAGGCTTGGACAAGGACCCGATGGTTATTGATGGTCCCTCTCCCTCTTTGGCAATGTTCATTCCTGGCTGGCAGAGGCTAACCCTGCCTCCTGCGGCCCTTAGAATGCTGCTTTGCTCTCAGTTTACAGGTAAACCTTACAGTAGAGGTGCATGCCATGACAGGATGTGGGAAGCTGGGCTTGGCTCCCACATGGCTCTGAGGTCTACCTCTTTCACTTCACCCTGTTCTCTGTGTTATGTTTCTTTGACAACTGTAGAGAGAGCCTCCGAGGCCACTGTGAACCATGAATTCCAGGTGCCATGTGACCGTGTGACTTGCTTTCCACACCCAGACCAGCGTCCTCACCGTCTGGTCTTATCCACCTCTCCCCAAACAG
Seq C2 exon
ATACGAGAAAATGACCAGTGGAATGTACCTGGGGGAGATTGTGAGGCGGATCCTGATCGACCTCACCCGGCAGGGGCTCCTCTTCCGAGGGCAGATTTCAGAGCGACTCCGGACCAGGGGCATCTTTGAAACCAAATTCCTGTCCCAGATTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020080:ENSMUST00000020277:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.155 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(25.4=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(21.7=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