BtaINT0135168 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001824 | SLC2A6
Description
solute carrier family 2 (facilitated glucose transporter), member 6 [Source:HGNC Symbol;Acc:HGNC:11011]
Coordinates
chr11:104417539-104419280:-
Coord C1 exon
chr11:104419135-104419280
Coord A exon
chr11:104418262-104419134
Coord C2 exon
chr11:104417539-104418261
Length
873 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CCGTGCACTCTCCCCCCCAGAAC
3' ss Score
9.4
Exon sequences
Seq C1 exon
GCTATGCCATGGGCTGGGGCCCCATCACCTGGCTCCTCATGTCGGAGATCCTGCCGCTGCGGGCCCGTGGCGTGGCCTCAGGGCTCTGCGTGCTGGTCAGCTGGCTCACCGCCTTTGCCCTCACCAAGTCCTTCCTGCTGGTGACG
Seq A exon
GTGAGTGCTCGGCCGGCAGGCCCCTCTGGCCGGTGCCGGGGGCCCGTGCAAAGGTGTCTCCATGAGTCCCCTCAGCCTCAGCACACACTCCCTTCGCACCGGGCCAGGGACCGTGAAGTGAGAGCCTGACGAGGGCTCCTTCGGTTCAGCAAACGCTTGGCTCGGGGAACTGTTGGGAGGTCAGGCAGCTGACCCCCAGACCGGGGTGAAACCACAGAGCCGGGCCTGCCCGCCCTGCCGCACCCTCCCGGGCAGTGAGCGCGGTCTTCCCTCTGGTGGGCAGCTTGGGTCTCAGCCGAGCGCGTCCCCGTCCTGACTTCACTCTTGGTTCAGCTTCCCAGCAGGCCTTGAAGCCAACCAGAGTCCCCAGTCCCCGGGTGGGAGGGGGTAACGCGGACAGCTTGGGCAGGGCCTGTCCTGGTGCAGTCAGTGCGGCAGGGCAGGGTGGGGGCACCCAGAGCCAGTGCCAGCAGGAGGCAGAGCGATGGTGGAGAGGGGAGTGTTGCGGGCAGAGTAGGAGCCCACCCCTGGCCGCGCCGTGGTGGTGAACCTGCTGCAGGGAGGCGCGTGGGAAGGCTGAGAGTGAAGGTGGGCGTTGGGACCAGGGAGAGAGAGGCTGGTGTCTGGGGCCAGGGTGGGCTCCAGCTCAGAGGTGGTGGTCAGTCCCAGGGCCCAGCACCAGAGGAGGGCTGCCTGCAGCCCTGGGGGGCCTCGAACACCCTGCTGAAACGGCTGGATTTCCTGCCGATGGTGGGGAGCCCCGGGGTGTCTGACCGGGTGATGTGATGGAGCCCCGCCACCCCGGCTGGCTGGCACAAGCCGGGCCAGAAGCTGGCACTGGGCTCCCCGTGACCCGTGCACTCTCCCCCCCAG
Seq C2 exon
AACGCCTTCGGCCTGCAGGCCCCCTTCTTCTTCTTCGCCGCCGTGTGCCTGGTGAACCTGGCCTTCACCGGCTGCTGCGTGCCTGAGACCAAGGGCCGGTCGCTGGAGCAGATCGAGTCCTTCTTCCGCACCGGGAGGAGGTCCTTCCTGCACTAGAGAGCGGCCCCGCCGGAGGGGCCTGCCGGAGTGGGCGGCGGAGCTGGGCTCTGGCCCCAAACTGCACCCTGCACCCAGGAGGCGGCAGCAACCCGCTGTCGACGGCCCAGGCACAGGAGGGCGGCCCAGAGGCCTGACAGCCCCCGGAACACGCACGGGCCCTGGGCGGGCCCTGGGCAGGCAGCACCGCCGTCCAGTGGCGTCACACACTTATCCGCCGGACCTGCTGGCAGAGGCGGCCATCACACGGCCTCAGGCCAGGGACAAGGCCTCGCTGGGAGACTTCGTGCTGAGGACAGACGGGGCCGGTGCTGGTGGACTGGCTCTGCACAGGGACGCCGCCACCCCGTCTGGTGCTCCCATCGCCTGGTGGCCGCGCGGGGACCAGGACAGGAAGCTGCACCAGTGAGGCCTGTGGACACCACAGGGGATGCGCTGGATGCCCACCGGCCAGGGCACAGGACCCAGCATGGACTCTGCCTCCTACACCCGCCCTGCTTCCGGGAATAGGAAGCGCTTGAGGGTGAGCTGTGTTCACACTATTTATACCAATAAACGAGAAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001824:ENSBTAT00000002385:9
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(10.5=100)
A:
NA
C2:
PF0008319=Sugar_tr=PD(8.9=78.8)
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:
CATCACCTGGCTCCTCATGTC
R:
GTGCAGTTTGGGGCCAGAG
Band lengths:
347-1220
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development