BtaINT0135160 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001824 | SLC2A6
Description
solute carrier family 2 (facilitated glucose transporter), member 6 [Source:HGNC Symbol;Acc:HGNC:11011]
Coordinates
chr11:104424004-104424788:-
Coord C1 exon
chr11:104424676-104424788
Coord A exon
chr11:104424167-104424675
Coord C2 exon
chr11:104424004-104424166
Length
509 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
ACTGCCCCCACACACACTAGGGT
3' ss Score
5.35
Exon sequences
Seq C1 exon
CCCGGGCGGGAGGAGCCGGTCATGCAGGAGCCGCTGCTGGGAGCCGAAGGCCGGGACTATGACACCTTCCCCGAGAAGCCGCCCCCGTCACCAGGGGAGAGGACGCGGGTCGG
Seq A exon
GTGAGAGTCGGGCGTAGGGTCTGCGGGTGGAGGATGCGGATGGCCTGGTAACCTTCAGTGGGCAGCGGGCTCCCCGACCTTGGGCCTCCACTGACTGTCTGGGAGTGGCCACCAAGGGGCCGCCTCGTTCAGACACACTAGTCCGGGTGCCCCCGCCGAGTACTAGGCCCAGGCCCCAGCTGGCAGAGACAGGGCCATGGACGCCCAGAGAAGGTGAGGTGTTTGCCTAGTCAAGCAGCAAGCTTTCTTGCATGGCAAAGCTGGGCGCAGACGCCAGGGCTCCTGTTCTGGGAACGGCGCCCTGCACCGGTGTCCCAGCCCCAGCGATGGGCTATCCTCATGCCCCGGGGGCTTCCCCAGGGAGCTGGGGCTCAGCCCCGGGAGGTGCCAGTCTGACCAGCTCTTGACCTAGCTGTCCCAGCACAGCCATTGTGCTCAGGCCAGGCAGCAGTCAGAGGTGGGGGGACTCAAAGATCCTGACGGCTCTGCACTGCCCCCACACACACTAG
Seq C2 exon
GGTCCTGCAGAACAAGAGAGTGTTCCTGGCTACCTTCGCTGCTGTGCTGGGCAATTTCAGCTTCGGGTATGCCCTGGTCTACACGTCCCCCGTCATCCCCGCCCTGGAGCACTCCTCGGATCCAAACCTGAATCTGACCAAAACCCAGGCATCCTGGTTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001824:ENSBTAT00000002385:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008319=Sugar_tr=PU(9.8=81.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGAGGAGCCGGTCATG
R:
AGGATGCCTGGGTTTTGGTCA
Band lengths:
262-771
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development