MmuINT0077999 @ mm10
Intron Retention
Gene
ENSMUSG00000025877 | Hk3
Description
hexokinase 3 [Source:MGI Symbol;Acc:MGI:2670962]
Coordinates
chr13:55019328-55021385:-
Coord C1 exon
chr13:55021146-55021385
Coord A exon
chr13:55019448-55021145
Coord C2 exon
chr13:55019328-55019447
Length
1698 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TTAACCCTTCTCTCCTATAGGTA
3' ss Score
11.86
Exon sequences
Seq C1 exon
GTGGTCATCTGGCTTGTTTGTACCATGGCCCTGCCCATTCTGGGCTCCGTTGAGAGCAGATTTGTAGGGAAGTGCCCTTTCCTGAATTAGCAGATTTCGGTTAAGTGGCTACAGAGGAAGGTGGAGCTTGGGGAGCTGACCCAGAGTTTTCACTTTTGAGTTTAGTCCAGTATCACTGTGGTCATATTTGGGAGAAGAGCTGAGCCCCCGAGGAAGGTGATCAACTTCTGAATCTCCCAG
Seq A exon
GTAAGCACTTCCTCTAATTCCTGCAGGCCTCGTCTCAAGCCCTCGGCTTATCCTATGGCTAATGGAGGTTAGCAAGACTGTGCTATGAGTTCTCACTGGTGACGGTGGTGCCCAGCCTCAGGACCGGTCTCTAGAATACCATTCAAAAGCAGCACTTTGGAACCATGTCTGATTCAGATGAGAAAAGTCAAGAAGCTCTTAATTCAAACATGTGTAGACTTTCGACTTGTTTCTGGTGACAGTGGAATGGAGACATGCCCCTCACTGGAAGAAGAGAGAGGTCCAAATGTATGAACCTAGAGTTTAAATCCTAGGGTTCCTTGCAGGAAACCTCATCGTCTGGCACGTGCGGAGTAAATGTTGAGTGTGCGAGCAGGTAAGTATGTGAATGATTGTGTTAGCTGGGCCTTGAACGAAGATAGTTGCGTCAGTTACCTTATTTTATCCTTTAACAGACTACTGGAATGTATGTTCTCTTCTGACAGATTGGAAACTAAGTGGTGATACACACACACACACACACACACACACACACACACACACATATAATTTAGGGGAGAGTTGTCAGAAACAAATTTCTTGCTTTACCAAATCTACTGCCTCCTTTTGAGACAGGGTCTCACTATGTGGCCCAGGTTGTCCTCAAACTCCTGATACTCCTGCCTCAGTCAACCAAGTGCTATGTTTACAGGCACGAGCACCAGGTCTAAATTTGCCCAACCCTGTCCCGGAATTGAAGTGCAGAGGTGACTCAGACATCACAAGGTTATGAGGCTAGCCCTTCAGAAATGGGGACCAACTTAAGTGAAAACTAAAAAGCAGATGACAGGGAGTCAGCATGTGTGGAGTTCAGAAGCTCAAGGAGTAGCAAGAGGAAGCTTGGGGTGAGGGCAAATGAGGATCCTGCAGTAGTACCACAGAGTTTGGCTCCATCTGTGGGAGGAGCCATGACAGCGTGAGCCGGGCTAGATTCAACCTGCGGAAGCAGAAATATCAGGAGACTCCTGGAATAGTCAGTAGTTGTGGGGACAAGAAAGAGAGGACAGGCATTAAAGTTCTTTCTCAGAGCCCCAGCTAGGGGCTAAGTGACTGTTCCCTTCTAAGCAAAACTCTTGATGCTTCTGGCCAAGTTGAGGGCAGATTTGTGGAAGGCTAGTGGAGAAAGGAATCTGCCTTTGTTGTGTTCAAGGGACCGCTACACTGCCATGGTGTGATCTAACAGACTGCTAGGATTGGCATTTGGATTAGGTCAGTGCCTGACTTGGAAGCTCCGACACACGAGTTTTAATGGTGAAATGGACTGAGTGTAGAGGAAGGCAGAAAGTTGTCCTTGGAGGCTTGGAAACCGTCCTATGTATTTAAAGGCAGAGGAGAAGAGTTACTTACTGATGAAGACCCAGGAAGACTGGGTCATGATAGACTGTCTGCAGGGGCCAAGGAAAGAAAGAATGCAGGAGCAGAGGGTCTCCAGAGGCTTAGGACTGGGCGGGAGGGGAAACATCGTCACACACACTTCTCAAAAACACCTGCCTCCTGGTGGATTGCTAAGGATTCTTTACTGGTCAGAAGTTTTTGGTTCTGTTTACAACTCCATTCTTCGTTCCTTCTGGAAGGAAAGAAGTTGTGAGTTTGAGTTATTGCCTCTTGGAGCCTGTAGACTAACCAGTCTTGAATCCAGTTAACCCTTCTCTCCTATAG
Seq C2 exon
GTAGTCAATACCCATTGTGGAAACATGGCCACCATTGGGCCTTCTGGCCTGCATCCTGGAGAAAGAGCCTCAGTCTGCCCACACGAGGGCGTGCCAAGGCCCTCAGGTAGCTTAGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025877:ENSMUST00000052949:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.816
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0034916=Hexokinase_1=PU(1.5=9.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTGTTTGTACCATGGCCCT
R:
TAAGCTACCTGAGGGCCTTGG
Band lengths:
343-2041
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