MmuINT0068141 @ mm10
Intron Retention
Gene
ENSMUSG00000041798 | Gck
Description
glucokinase [Source:MGI Symbol;Acc:MGI:1270854]
Coordinates
chr11:5900820-5902318:-
Coord C1 exon
chr11:5902085-5902318
Coord A exon
chr11:5901815-5902084
Coord C2 exon
chr11:5900820-5901814
Length
270 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
CCCATTTTCCTCCTGTTCAGCTT
3' ss Score
8.62
Exon sequences
Seq C1 exon
CGACTCTGGGGACCGAAGGCAGATCCTTAACATCCTGAGCACTCTGGGCCTTCGACCCTCTGTCGCCGACTGCGACATTGTGCGCCGTGCCTGTGAAAGCGTGTCCACTCGCGCCGCCCACATGTGCTCAGCAGGACTAGCGGGGGTCATAAATCGCATGCGCGAAAGCCGCAGTGAGGACGTGATGCGCATCACGGTGGGCGTGGATGGCTCCGTGTACAAGCTGCACCCGAG
Seq A exon
GTCAGCCTCCACCTTCGCTCGCGCTCCAACCTCCCGGGCTCCAAGGGAGGCTCCAAGGGCGCGGCTTTCAACTCCAGGCTTTTGTGAGCCGATCCTGCTTGATTCTCCCTGGGCCTGGAATACTGAATATATACTGCAGTCTGGGGTGAGGGGTGGGAGTGAAGAGGTGGGGCGTGGCCTGGTGGGGCGTGGGCTGCCGTGGCGGGGGTGGCAAAGGTGGGATCTAAAGGATGGTAGCAGAAATAGCAGCCCCATTTTCCTCCTGTTCAG
Seq C2 exon
CTTCAAGGAGCGGTTTCACGCCAGTGTGCGCAGGCTGACACCCAACTGCGAAATCACCTTCATTGAATCAGAGGAGGGCAGCGGCAGGGGAGCCGCACTGGTCTCTGCGGTGGCCTGCAAGAAGGCTTGCATGCTGGGCCAGTGAAATCCAGGCAAGGACAGGGACCTGGGTTCCACGGGGACTCCACACCCCACAAATGCTCCCAGTCCACTAGGGCAGGAGACCTATTCTGCTGCTACCCCTGGAAAATGGGGAGAGGCCCCTGCAAGCCAAGTCAGCCAGTGAGACAGCCCTAGGGCTCTCAGCCTGGGGCAAGGGGCAAGAGGATCAGCGGCACCAAAAGCCTTTCTTGCTAGAATCAACTACAGAGAAAGGTGAAGCACACTCAGGTCTTGCTCTTTCAGCTTCTGGCCTCCCACAGCTGTGGGTCTGGCCTCCCAAGGGAGTGCCTCCTGGACTTGCAATGGCCTGGCTTCCCTGGGAACACATCTCCATGGGGAGGTAGCTTCAGCAGCTTGGCCAGACCAGACCTGGGCCCCCAGAAGAGTAAGGGCTGCCCAGACCTGGCTGTTTTCTTGCCTGTGGCTGAAGAGGCTGCAAAACCATGGGAGACCGACTATCTAGCTACATGGAGGGGACTTTCCAGGCCACAAACATTCCAGAGACAGTCTCCTTCATATACCTCCACCCCTGAGTGGCTTACAGTTCTGGGATGAACCCTCCTAGGAGATGCCAGAGGATAGAGGCCCAGAGTCCTTGCTCTAGGGGACCTGAAGGGGAGCGCCTCACTCTGCACTGTTAGCAGGATGGCAGCTTCAACACTCACATCAGTGATCCGGGAAGAGAAGCAAGCCACCCACAGCATCTCTCCAGGAAACCACCCAGGTCCCTCTGTCCCTCATCCCTGTCAGGTTTCCCAGATGCCATGCCGCCCTCTCCACACCAGCTTGGAACCATGGGGGAGTTTTTAATTAAATATTTAAAACTACTTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041798:ENSMUST00000109823:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(32.5=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(16.7=81.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGACTAGCGGGGGTCATAA
R:
CATTTGTGGGGTGTGGAGTCC
Band lengths:
303-573
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