HsaINT1041969 @ hg38
Intron Retention
Gene
ENSG00000160326 | SLC2A6
Description
solute carrier family 2 member 6 [Source:HGNC Symbol;Acc:HGNC:11011]
Coordinates
chr9:133473105-133473600:-
Coord C1 exon
chr9:133473415-133473600
Coord A exon
chr9:133473251-133473414
Coord C2 exon
chr9:133473105-133473250
Length
164 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
CTGCCTCCTCCTCCGAGCAGGCT
3' ss Score
7.84
Exon sequences
Seq C1 exon
CGGCCATCATGTTTGCTGCCAACCTGACTCTGGGGCTGTACATCCACTTTGGCCCCAGGCCTCTGAGCCCCAACAGCACTGCGGGCCTGGAAAGCGAGTCCTGGGGGGACTTGGCGCAGCCCCTGGCAGCACCCGCTGGCTACCTCACCCTGGTGCCCCTGCTGGCCACCATGCTCTTCATCATGG
Seq A exon
GTAGGTGTGGTGGTGGCTCAGAGGGGCAGGCTGTCTTGGGTGTTAAGGGATGGGTGATGTGTCTGGGGTGGCTGGAGAGGGGGGTCTCCAGCAGCTCAGCGGAGACAGACACAGCCGCCTCCAGTCACCCCACAGGGCCTGAACCTGCCTCCTCCTCCGAGCAG
Seq C2 exon
GCTACGCCGTGGGCTGGGGTCCCATCACCTGGCTGCTCATGTCTGAGGTCCTGCCCCTGCGTGCCCGTGGCGTGGCCTCAGGGCTCTGCGTGCTGGCCAGCTGGCTCACCGCCTTCGTCCTCACCAAGTCCTTCCTGCCAGTGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160326:ENST00000371899:8
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:
PF0008319=Sugar_tr=FE(13.5=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGCCCCAACAGCACTG
R:
AGGACTTGGTGAGGACGAAGG
Band lengths:
256-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains