MmuINT1020563 @ mm10
Intron Retention
Gene
ENSMUSG00000037012 | Hk1
Description
hexokinase 1 [Source:MGI Symbol;Acc:MGI:96103]
Coordinates
chr10:62290160-62292043:-
Coord C1 exon
chr10:62291975-62292043
Coord A exon
chr10:62290394-62291974
Coord C2 exon
chr10:62290160-62290393
Length
1581 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
TACTCTCACCCACCTCCCAGGGA
3' ss Score
7.28
Exon sequences
Seq C1 exon
GGGATGGGAACTCTCCCCTGACCGCAGGTGGTACCAGGCATATATGAGGTGCACACAAGACACCCACAG
Seq A exon
GTATAAAAAGAAAAAAGTTAAAAAGAAAAGGGTTTAGCACAAGTGCTTTATGGATAATTTTGTGTGGTTTCAAAAACAGTCCCTTCTGTCACCCTCACACACCATACATAAATACACACACACACAGCACACTACATATGCATCACACATACAAATACACACATCACACAGACACACAGACACACACACACCCTGGGTAAAAGCTGGGTCCAGGCAGCAGATGACTCCAGTGTCGAGCAAGGGTCTGACCAAACCTGAGCCTGGATTCTTAGAATTCCCCCTTAGTGTATCATGGCCTTTCCCAAACTGTGTTCTAGGAAACCTAGAGGTGTCTAGTCAACGACTGGATGGTTCTATGGGAAATACTAGTTTATAACATTCATTAATTAGAACGCTAATTAATGTGATTAACCCATCATTCCCCAAACACTGGTTCATAGATAAAGTCAGAGTTTAGGCAGCATCCTGCCCTCTGCCCTCTGGCATCCCATAGGATGCTCAGGAGCCACCATCTCGACTCTGAGAGGTGCACAGCATGGTGCAGTCTATATGAGCCCCTTGCTGCGGGTGGCTGCTGTGTCTCAGTGGGCTCTAGTCCTGCTTCTGGAGGCTTCCCACAGCCGTGGAAGGCCATCAGCAGAGACAGAAAGCCGTGAGGCTGCTCTGTGCCACCAGTCCCCACATGCGTCGACTGCCAGTGTGCCCTCTGGTCCTGGGTATTTACCTCCGGTTGGCGGAGCTTCATTCACTTCGGCTCTGACAGTCATATGCACAGCCATCTCTGTGGCTAAAGAGGCTGCTGGGTGGCTGAGGGCTTTTCCCCCCGATTTATTCTCTGCCCACACTGCGTGTTGGAGTTTGTTATCGGGTCATTCTCCTTCGGTCCCAAGATTCCGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTGTAACTTAACTTTACAGTCATTGGCGAAAATGAGTCAATGGCGAAAGTGAGTCAGGAAAGTGCCTGCCTTCTTCATCTTGGCCTGTTTCTGCCACTGGGTCTTTGGTTACTGAGAACTACAATGCCAAAGGGGTGTGGGACAGACAGATGGACAGACAGACAAACAGACCTGAGAAAGATTTTTAAGACTAACCATGTATAAGAACAACAGAGCCATACAGTACCTCTGAATGAAACCAACAAAAGATACGCAAGACTCATAGGCAGAAGATTAGAATTTTACAGACAACATTGGTACGTTTGTGTAAGCAACTCGGAACGCTCCATGGGGAGAGGATCCCCTCATGTTATGTTAATTAACCCCCAGGTAAAAAAACCAGCTCTTTCTCCACCTGCTCACAGGCCACGTGTGCGGTCTCCCCTTTCCAAGGCCTGGCATGAGGTACCTGGCCTGGTAGCATTTTCCACCAGCCAGATCTCTCTCCTGCAAGAACCCCACCTCAGGCATTTCACAGAGCTGCACCCACACCAGGCCGTGCCATGGGTTCTGCCTTCCCCAGCTTTGCTTCCCGATTCTGGCACTCTCCACAGCCTGCCGTGAGCTTGAACTCTTAAATTTTGATATCTTACTCTCACCCACCTCCCAG
Seq C2 exon
GGATAAGGAAGGCGTTCAAAATGCCAAGGAAATCTTGACCCGCCTGGGAGTGGAGCCGTCTCACGATGACTGCGTATCGGTCCAGCACGTATGCACGATCGTCTCCTTCCGATCAGCCAACCTGGTGGCTGCCACGCTCGGTGCCATCTTGAACCGCCTGCGGGACAATAAGGGCACGCCCAGGCTGCGGACCACAGTTGGCGTAGACGGTTCTCTCTACAAGATGCACCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037012:ENSMUST00000116238:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=PD(6.9=37.5),PF0372711=Hexokinase_2=PU(7.0=37.5)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(60.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACTCTCCCCTGACCGCAG
R:
TGTGGGTGCATCTTGTAGAGAGA
Band lengths:
296-1877
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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