MmuINT0068135 @ mm9
Intron Retention
Gene
ENSMUSG00000041798 | Gck
Description
glucokinase [Source:MGI Symbol;Acc:MGI:1270854]
Coordinates
chr11:5809086-5810435:-
Coord C1 exon
chr11:5810281-5810435
Coord A exon
chr11:5809206-5810280
Coord C2 exon
chr11:5809086-5809205
Length
1075 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CACACTGGTGCAACTCCTAGCTC
3' ss Score
2.32
Exon sequences
Seq C1 exon
AAGTTGGAGACTTTCTCTCCTTAGACCTGGGAGGAACCAACTTCAGGGTGATGCTGGTGAAAGTGGGGGAGGGGGAGGCAGGACAGTGGAGCGTGAAGACGAAACACCAGATGTATTCCATCCCCGAGGACGCCATGACGGGCACTGCGGAGATG
Seq A exon
GTGAGCAGCCAGAGGGGCTGGCAAAGGAGGGCTAGGGGTCAACGTCACCCAGAACCTCAGGAGAATTGGTCCTGATGGGAGGGTTCCAAGGACAGGAGTGATGGAGGTCCACCCAGCTTCAGAGACTCAAGAAGGTGTCTCAGAGGCTTAAAGTATCCCAAGTCCCAATCCCAGCCGGCCCAGAACAAGAAGGGGCTGAAGAAAGGTCAGCAGCAAGAGAAAACCCCAGCTCCTGTTCAATTTCCTAGTGGAAAATCAAAGCTTAGGACTGAGCAGCCAGAACCATACTTGCCCCTCCTTCCTCACAGGCCGCCATTACCCAGCAACAGGATATGCCAAGTGGCATGGCCGAAGCCACATTGCCTAAGCAGCAAAGGTCCCTAAGCATGAGAAAGACCCAGATGGGAGACCAGGAAATAGAAGGACCCGGGTTAAGATAGAGCCCCCCACTGACATCCCCAGGGACAAAGCAAAACCCTTTACCAGAGGGGCAACCAGGCAAGAGGTCGCCTATAGCCACTCAGCCTTCCCTTAGCAGACCTTGAACCAGGCATGTCATGACCCAGCTCCCTCATCCATCTGCAATGTGTCAGCAATGCCCAGTGATTGAGTGGTCCCACTTGAAGGGATTAGGATCGGCCTTCAGCGGGGGCAGGGGGCCAGTATACCTGGGAAACAGCAAAAGAGACAGAAATCATAGTCATAGCTAAGAATGGACTCCACCCAGAGCTTCACAGGATAGTCATCCAGGTTTAACACCAGCCAGTCCTGTGCTGTGTCACCTTGCTCTGGAGACTGCAATGTGCAGGGTGCTCCACCCAGGGAAGTGTAAGGCCTTAGTCCTGTTGAGAAGCAAACTCTAGACAGGTCCAGCATACAGTTGCCTCCCATTGTCCCTAAGAGTGTGGATGAGGGGAGAAGATGCTCTAAGTGGGAATTTGGTGAGGCAGAACTGGAGCTGCCTCAGGGGTCAAATGTCTTAACATCTCCAAGAGACACTTTGGTACAGTTCCTGGGGAGAGAGAACTGCTACTGTCCCAGCCCTGACCTAATGCCACACTGGTGCAACTCCTAG
Seq C2 exon
CTCTTTGACTACATCTCTGAGTGCATCTCTGACTTCCTGGACAAGCATCAGATGAAACACAAGAAACTACCCCTGGGCTTCACCTTCTCCTTCCCTGTAAGGCACGAAGACATAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041798-Gck:NM_010292:3
Average complexity
IR-S
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(24.5=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(18.8=100)
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:
TCTCTCCTTAGACCTGGGAGGA
R:
CTTGTCTATGTCTTCGTGCCT
Band lengths:
262-1337
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: