MmuINT0078000 @ mm10
Intron Retention
Gene
ENSMUSG00000025877 | Hk3
Description
hexokinase 3 [Source:MGI Symbol;Acc:MGI:2670962]
Coordinates
chr13:55011148-55012260:-
Coord C1 exon
chr13:55012027-55012260
Coord A exon
chr13:55011444-55012026
Coord C2 exon
chr13:55011148-55011443
Length
583 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTC
5' ss Score
5.3
3' ss Seq
AGCTTGGTGTGTTTGCGTAGGTT
3' ss Score
5.84
Exon sequences
Seq C1 exon
CACCGCCACTGGGACAGCCCGCGTCCACACCATCCTGCAGGACTTGGGTCTGAGCCCTCGGGCCTCAGATGCTGAACTGGTGCAATATGTGTGCGTGGCTGTGTGCACACGGGCTGCCCAGCTCTGTGCGGCTGCCCTGGCTGCAGTCCTCTCCCGCCTCCAGCACAGCAGGGAGCAGCAGACATTGCAAGTGGCTGTGGCCACTGGAGGGCGAGTGTTTGAACGACACCCCAG
Seq A exon
GTAGTCTGAGGATAGGATGTGAGCATTTATGATATACATCCAGAGGGCACTCTGGTACCCTGTGTACGAGCTAGCGGATGTGAATGGCAGAGTTGGGAGTTAGTCTAGGTTGTGGGATGCCTGGAGACATGTAAAAAGAGAAAAATATTTCTTTTCACATGTGCCAGTGAGAGGGGCAGGGAGGGCAGTGGATGTATGGTTGGTACCAATGAACAGGTTTAGGACTAATTTGTTTTATTAAAACATTTTAATAAAATAAAATTCTATTAAAACCCATAGCTCCAGCTGCATATGCAGCAGAGGATGGCCTTATCTGGCATCAATGGGAGGTTTGATGCCCCAGCATAGGGGGATGCTAGGGCAGTGAGGTGGGAGTGGGTGGGTGAGTGAGAAAGCACCTTCACAGAAGCAAGGGGGAGTGGGGATGGGATAGGGGGTTTGCAGAGGAGAAACCAGGAAGAAGAACAGCGTTTGGAATGTAAATAAATAAAATAACCAATTAAAATAAAAAATAAAATTTAAAATGGTAAATTTTAAATAGGGCTCAGATGCAGAGCTGAGTGAGCTTGGTGTGTTTGCGTAG
Seq C2 exon
GTTCCTCCGAATCCTAAAGGAGACGGTAACACTCCTGGCCCCAAACTGTGATGTCTCCTTCATCCCCTCTGTGGATGGTGGTGGCCGGGGTGTGGCAATGGTGACAGCTGTGGCTGCCCGCCTGGCTGCTCACAGGCGCATCCTGGAAGAGACCCTGGCACCATTTCAGCTGACCTTGGAGCAGATGACAGTGGTGCAGGCACAAATGCGGGAAGCCATGATCAGGGGGCTTCAAGGAGAGGCCTCCTCCCTCCGCATGCTGCCCACTTACGTCCGAGCGACGCCCGACGGCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025877:ENSMUST00000052949:10
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:
PF043618=DUF494=PU(48.8=49.4),PF0034916=Hexokinase_1=PU(1.5=3.8)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(16.7=40.0),PF0034916=Hexokinase_1=PU(28.5=57.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGTGCAATATGTGTGCGT
R:
GTCATCTGCTCCAAGGTCAGC
Band lengths:
348-931
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