MmuINT0068139 @ mm9
Intron Retention
Gene
ENSMUSG00000041798 | Gck
Description
glucokinase [Source:MGI Symbol;Acc:MGI:1270854]
Coordinates
chr11:5803103-5804547:-
Coord C1 exon
chr11:5804364-5804547
Coord A exon
chr11:5803259-5804363
Coord C2 exon
chr11:5803103-5803258
Length
1105 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGG
5' ss Score
4.86
3' ss Seq
ACCGACTGTTCTGTATCCAGGTA
3' ss Score
9.35
Exon sequences
Seq C1 exon
GCACCGGCTGCAACGCCTGCTACATGGAGGAGATGCAGAATGTGGAGCTGGTGGAAGGCGATGAGGGGCGCATGTGTGTCAACACAGAGTGGGGCGCCTTCGGGAACTCCGGTGAGCTGGACGAGTTCCTCCTGGAGTACGACCGGATGGTGGATGAGAGCTCAGTGAACCCCGGTCAGCAGCT
Seq A exon
GTAAGGATGCCCCCCGCCCTCCTAGCCCACCCCAGTGGCTGTGCTGGCTGGGCATGCCACAGCTGGCTCACAGCACATAATAAATAGCCTGCTTATAAGCAGCTCTGGGGAGAAGCAAGTTGATGAGCCATCTGTGAGCTGGTTCTTTTCTTCAGCTCAGTTATCCCCTGCCCTGTGAAATGTGGAGCTGTCATGGTGGTTAGTATAAAGTCCCACCTCTCTACTCCTATAGGTGGCCTCCCACCAGATGGCCCTGAAAGACCCTTAGCAAGGTTTATCTGGTTTAAGGAAGAAACTCCCAAAGTACATATGCATGCCAGTTCCACAAAATAAGAATTGGCATTTAGGGGAATGCTGTGGGTTGGCAGAACATAGCTTGGGAACCAGCTGCCTTGAGTCATGGCTACTGCGGGGTATTGAGGTATACTCCTCTAATCTCACCACTTAGGAGGCAGTCAGACAGATTTCTTCGTGTCCCAGGCCAGCCAGGGATACATAGTAAGACCCTGTCTCAAAATAAAAGTAACTCAGTAAATAAAATGAATCATGCCTATCACAAGTTAGTCACCTATGTGGTACCATTCTCATGCTAACTATTTTATGAGTTTCCTCACAGACCCTCACGGGCCTCTGTTAGGTCATTTAATATCTGCTGGATTTCAAGACGAAAATATGGAGCCTCACACATTAGACAAAAATATACCAGGCTGCATGTGCCATGCCGGGCACCAACCCTGTGAGCCACTGAGAATGGTTGTCACTAAATTCCAGGGTGTGGGCTTCACACAAGGCCTGTCACCAGTAAGCTTTCAAAGGACCAGAGGCTCCTTAACTCTTTGTCCCTTTAATATACCAGGGTCAGCACAGGGCCAGATGTACCCCTCAACTGGGTTAAAACTGTGCATGTTCTCAGGACCTGAGGTTTCTGAAGCCTCTAGTTACGAATTTCGGGGTGGGGGGCAGGTTGTGAGGACAAGACCTTGGATAATGGCTTGGGGGTGGGGATGAGAGGGATCAGTGCCCCACGTGGTCACCTCCTAACCAGAATAGGGCGCTTGGGGATTTCCTGACGGTCAGCTGGCATAACCGACTGTTCTGTATCCAG
Seq C2 exon
GTACGAAAAGATCATTGGCGGAAAGTACATGGGCGAGCTGGTACGACTTGTGCTGCTCAAGCTGGTAGAGGAGAATCTTCTGTTCCACGGAGAGGCCTCAGAGCAGCTGCGCACACGTGGTGCTTTTGAGACCCGTTTTGTGTCGCAGGTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041798-Gck:NM_010292:7
Average complexity
IR-C
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:
PF0372711=Hexokinase_2=FE(25.4=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(21.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACGCCTGCTACATGGAG
R:
TCTCCACCTGCGACACAAAAC
Band lengths:
329-1434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: