DreINT0150524 @ danRer10
Intron Retention
Gene
ENSDARG00000058731 | slc2a6
Description
solute carrier family 2 (facilitated glucose transporter), member 6 [Source:ZFIN;Acc:ZDB-GENE-081104-301]
Coordinates
chr8:12823848-12824293:-
Coord C1 exon
chr8:12824194-12824293
Coord A exon
chr8:12824060-12824193
Coord C2 exon
chr8:12823848-12824059
Length
134 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
ATCCTATCATCTCCCTCCAGGCC
3' ss Score
9.81
Exon sequences
Seq C1 exon
GTGTACGTGTCAGAGATCTCCCACCCGTCCGTAAGGGGTGCGCTGGGTTCATGTCCTCAGATCACTGCCGTATTTGGAAGTCTAGCGCTCTACGCTTTTG
Seq A exon
GTGAGAGAGCTCAAATCTCTTAGATTGTTTTAGCTGTATGACGAAACACTCTTTCATGAATGTCCAAGCATTTTTTTTTATGCATTGTACTGAATGTCTTTTATGAATTATGCTATCCTATCATCTCCCTCCAG
Seq C2 exon
GCCTGATTTTGCCGTGGAGGTGGCTGGCTGTGGCTGGGGAAGTTCCTGTTGTTATCATGATGCTTTTGCTTTGCTGCATGCCGACCTCTCCACGTTACCACATCATGAAAGGAAACAGAGCTAAAGCTGTTAAATCACTAGAATGGCTCAGAGGGCCCAATTCTGATTATATGACTGAGTTTAATAAGATCGAACGCAGCATCACAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058731:ENSDART00000142201:3
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(7.3=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(15.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCTCAGATCACTGCCGTA
R:
AGTTGTGATGCTGCGTTCGAT
Band lengths:
258-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]