DreINT0150529 @ danRer10
Intron Retention
Gene
ENSDARG00000058731 | slc2a6
Description
solute carrier family 2 (facilitated glucose transporter), member 6 [Source:ZFIN;Acc:ZDB-GENE-081104-301]
Coordinates
chr8:12819409-12819913:-
Coord C1 exon
chr8:12819768-12819913
Coord A exon
chr8:12819571-12819767
Coord C2 exon
chr8:12819409-12819570
Length
197 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
TGTCATACCTTTTAATATAGGTC
3' ss Score
7.36
Exon sequences
Seq C1 exon
GTTATGCTATGGGCTGGGGTCCAATCACATGGCTGCTAATGTCAGAGATTTTACCTTTGGGTGCGCGTGGTGTCGCATCCGGTTTGTGCGTTGGTGTTAGTTGGATCACAGCCTTCGTCCTGACGCAACTCTTCATGCACGTTGTG
Seq A exon
GTGAGCTGTTTTTACAAACCTACAAAACAGGAAGTGCAGAACATTTATTTTATCTTCATTCTGATCTCTTTCTTATCTTACCCTAAAGATGTCTTTAAGGTTAATACAACCAACTTTTGACACTGACATGTTTTTTTTTTAAATGTTGTCATTATATATTTAGTATTCATGTTTTTATGTCATACCTTTTAATATAG
Seq C2 exon
GTCGCCTATGGACTGTATGTACCTTTCCTGTTCTTCTGTGTGGTCTCTGTAGTGAATATAATATTCACTGCTAAATGCGTGCCGGAAACCAAAGGTCGAACTCTGGAGGAGATTGAGAACTACTTCAGGACTGGCAGAAGCTTCACCATTCATGATCCTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058731:ENSDART00000142201:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008319=Sugar_tr=FE(10.6=100)
A:
NA
C2:
PF0008319=Sugar_tr=PD(9.0=75.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTTTACCTTTGGGTGCGCG
R:
GTGAAGCTTCTGCCAGTCCTG
Band lengths:
246-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]