Special

MmuINT1020566 @ mm10

Intron Retention

Description
hexokinase 2 [Source:MGI Symbol;Acc:MGI:1315197]
Coordinates
chr6:82735247-82736834:-
Coord C1 exon
chr6:82736530-82736834
Coord A exon
chr6:82735396-82736529
Coord C2 exon
chr6:82735247-82735395
Length
1134 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
ATTCGGGGTTCATTTTCCAGAGA
3' ss Score
6.57
Exon sequences
Seq C1 exon
TTTTGCCAAGCGTCTCCATAAGGCAGTGAGGAGGCTGGTGCCCGATTGTGATGTCCGCTTCCTCCGCTCTGAGGATGGCAGCGGCAAGGGGGCGGCTATGGTGACGGCGGTGGCTTACCGTCTGGCTGACCAACACCGGGCCCGCCAGAAGACCCTGGAGTCTCTGAAGCTGAGCCATGAACAGCTGCTGGAGGTTAAGAGAAGGATGAAGGTGGAAATGGAGCAGGGTCTGAGCAAGGAGACGCATGAGGCCGCCCCTGTGAAGATGTTGCCCACTTATGTGTGTGCCACTCCAGACGGTACAG
Seq A exon
GTACGTGGCATCGACGCCCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTGTGTGTCGTGAGCCAAAAGATATCCAGTCCCCCTGGAGCTGAAGTTAGGGGGAGTTGGGAAACCCCTGATGTGCTTATTAGGAGCTTAACTTGGAACCTCTGCAAGAACAGTGTGAGCTCTAAACTGCTAAAGTTTCTCTTCAGCCCCATTAGTTTTGCTTTATGAAATGGGTCTAATGTAGCTCAGGCTGGCCTCAAATGTAGTCCAGGATGCTGTACAGGACCACCTTGAATCAACCTATGCTAGGATTGTTCGTGTGTGCAGACATTCAGACCAACCAATTTTTTTGTCTATTAAAAATTTGCTCTTTGGCTGAGAACTGAAACCAAGAGAGCCTCGCTCAAGTTCATACAACCAGTGTCAGCTGACATTCAGACCTAGGAATCTGCATTCCAGAGGCAGCTCTCAAATACTACATTAGTTGGGTCTACATGTATTTCCTGTTTGGCTCCATATAAAAAATTTCTGGTCCGTGATGGTTCATGGTTGGCACCGGCTCTCGAGGCAGAAGCTAGGGTTAGGTAGCCTGTTAATATGGGGCCTAGCTCCATTCAAGCACCCCTCAAAGATCACCTTTAAGAGGGAAAAGGAACGTGTTCGGTTGCCTCAGGGTCTTATATATAGCCCAGGTTGGGTTTAAACTCACAGTGTGGCTAAAGCTGGCCTTGAACTCCTGATCCTCTTCCCAAGTTCCACATCCCAGGTTCTGGGACTGCAGGCATTCCACTTTCCCTGACTTCAGTTTTCTTTGAAGAGTCCCTCTACTTCTGCTTCTCTTCCAGAATTGTACCCTAGGTGGCATTTGTCTTGGCTCAGATGTGACATTTAGAGAGTTTTAAGTATACTGTATTGGCATTCCTCATGTTCTGAAGGGCCGACTTGTGGCGTTCCACCAGATGGGCCCATTCGGATCTGGTGATGAAGATGTTGCTTTCTTAACTGCCAGGTGGCGCTCACACTCCATCTTCTCCCAAGACTTGAGTTTCACAATGTGTCTTCCACAACCCACGAAGGGAGCTATATTCTGTCACCCCAACTCATTATTCGGGGTTCATTTTCCAG
Seq C2 exon
AGAAAGGAGACTTCCTGGCCTTGGATCTTGGAGGAACAAACTTCCGGGTCCTGCTGGTGCGCGTGCGTAATGGCAAGCGAAGGGGCGTAGAGATGCATAACAAGATCTACTCCATCCCACAGGAAGTCATGCATGGCACTGGAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000628:ENSMUST00000000642:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.097 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0372711=Hexokinase_2=PD(16.7=38.8),PF0034916=Hexokinase_1=PU(29.1=58.3)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(23.8=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
LOW PSI
(hk2)
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGCGTCTCCATAAGGCAG
R:
GCAGGACCCGGAAGTTTGTTC
Band lengths:
354-1488
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