MmuINT0068137 @ mm10
Intron Retention
Gene
ENSMUSG00000041798 | Gck
Description
glucokinase [Source:MGI Symbol;Acc:MGI:1270854]
Coordinates
chr11:5906477-5906778:-
Coord C1 exon
chr11:5906683-5906778
Coord A exon
chr11:5906577-5906682
Coord C2 exon
chr11:5906477-5906576
Length
106 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
GTCTCTGTACTTCTTGGCAGGAC
3' ss Score
8.18
Exon sequences
Seq C1 exon
GGCATCCTGCTCAACTGGACCAAGGGCTTCAAGGCCTCCGGAGCAGAAGGGAACAACATCGTGGGACTTCTCCGAGATGCTATCAAGAGGAGAGGG
Seq A exon
GTGAGCATAGCTTTGCCTGCCCTCAGGGGCTGTCCTGCGGATGTTCTCCCTCATCACAGGGCCCTCTCCTCAGCTCCATGTCCACAGTCTCTGTACTTCTTGGCAG
Seq C2 exon
GACTTTGAGATGGATGTGGTGGCAATGGTGAATGACACGGTGGCCACAATGATCTCCTGCTACTATGAAGACCGCCAATGTGAGGTCGGCATGATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041798:ENSMUST00000109823:5
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:
PF0034916=Hexokinase_1=FE(14.9=100)
A:
NA
C2:
PF0034916=Hexokinase_1=PD(11.1=67.6),PF0372711=Hexokinase_2=PU(10.8=23.5)
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:
GGCATCCTGCTCAACTGG
R:
CACAATCATGCCGACCTCACA
Band lengths:
195-301
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