MmuINT0146123 @ mm9
Intron Retention
Gene
ENSMUSG00000036067 | Slc2a6
Description
solute carrier family 2 (facilitated glucose transporter), member 6 [Source:MGI Symbol;Acc:MGI:2443286]
Coordinates
chr2:26878239-26878769:-
Coord C1 exon
chr2:26878608-26878769
Coord A exon
chr2:26878385-26878607
Coord C2 exon
chr2:26878239-26878384
Length
223 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGA
5' ss Score
5.12
3' ss Seq
TGCTCCTCTCTTCCGGTCAGGCT
3' ss Score
7
Exon sequences
Seq C1 exon
CATCCGTCATGTTTGCTGCCAACCTGACACTGGGGCTCTACGTCCAGTTTGTGCCAAGGCCTCTGACCCCCAACAGCACTGTGGAGATCGTGACCCTGGGGGACACAGCCTTCAACTATCTTACCCTGATACCCCTGCTGGCCACCATGCTCTTCATTATGG
Seq A exon
GTAGGACACCACAGTGATGGGGAGACCTGGGATGGGCTGTTTGGGGGGATGGGGGCCACAAGGGTTCCATCACTGTCCTGGGTAGCCTAAAGAGTTGGGGAGTTGGACAATAGGACCCTCTAGCCACCCACTCATATCATGTAATACCTCAGCTGAGATCCTCAGGAGGAGCAGGCAGCCCTGCTCCAGGGCCTGAGCCTAACTGCTCCTCTCTTCCGGTCAG
Seq C2 exon
GCTATGCCATGGGCTGGGGTCCCATCACCTGGCTCCTCATGTCTGAGGTTCTGCCCTTGCGTGCCCGTGGTGTGGCCTCAGGGCTCTGCGTGCTGGTCAGCTGGCTCACAGCCTTCGTCCTCACTAACTACTTCCTGCTGGCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036067-Slc2a6:NM_172659:8
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:
PF0008319=Sugar_tr=FE(12.0=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(10.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTTTGCTGCCAACCTGACA
R:
TGCCAGCAGGAAGTAGTTAGTG
Band lengths:
297-520
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: