BtaINT0135165 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001824 | SLC2A6
Description
solute carrier family 2 (facilitated glucose transporter), member 6 [Source:HGNC Symbol;Acc:HGNC:11011]
Coordinates
chr11:104419954-104420795:-
Coord C1 exon
chr11:104420643-104420795
Coord A exon
chr11:104420063-104420642
Coord C2 exon
chr11:104419954-104420062
Length
580 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TCACGGCTCCCTCCTCGCAGCCT
3' ss Score
9.25
Exon sequences
Seq C1 exon
AGCAGCCACCTGTCGTGGGCCGAGGCCCGGGACCCGCACATGTACCGCCCGATTGTCATCGCCCTGCTGATGCGCTTCCTGCAGCAGCTGACAGGCATCACGCCCATCCTCGTGTACCTGCAGTCCATCTTTGACAGCACCGCGGTCCTGCTG
Seq A exon
GTGAGAGCGTGCCCCTGCCCCAGCCCTCTGTCCCCAGGCCCGGGGAGGCCGTGCCCGCTGAGCGCCTGCCCTGCCCGGGGCCCCGGGCACACCCACGTCTCATAACTGTTTCTGTGCGCCTGCCTGTCCTGAGTAATGTTTGTAAGGCTTCCATGTTTTAAGCAAGATACTCGGAATTACAAGGGAGACCAGTCTTCTAGAAAAACGACCCCCTGGGAACCACAGATCCCAGGTTCAGAGCATCTGTCACTCACTGAGGAAGTCAGGTCCCCCCCGCCAAAACCTCAGCTTCCTCCTCTGCGAACTGGAGATAATAGCCAGCAGGCCTTCACATGCCTGTCCTGGGCTCAGAGATGAGATGAGGTGTGAAGATTAGGGGCAGTGGTGCCAGGATCCAGTACCAGCCCTGGGCTTAGTGGTGGGCATGACGGTTGTGCCCCCTGCCAGCAAGGCCCCGCGGGCTGGGCTGGGTGACTGGCAGAAAGCTGCTGAGCCCAGGGCCTGACCCTGCAGAGCCTTGGGGGTGGGGGAGAGGCCCAACGGGCTAGGGTCGCTCGGCCTCACGGCTCCCTCCTCGCAG
Seq C2 exon
CCTCCCAAGGTTGACGCCGCCATCGTGGGCGCCGTGAGGCTCCTGTCCGTGCTGATTGCCGCCCTCACCATGGACTTGGCCGGCCGCAAGGCCCTGCTCTTCGTCTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001824:ENSBTAT00000002385:6
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(10.9=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(7.8=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:
GACCCGCACATGTACCGC
R:
GAGACGAAGAGCAGGGCCTT
Band lengths:
230-810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development