BtaINT0135173 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006957 | SLC2A8
Description
Bos taurus solute carrier family 2 (facilitated glucose transporter), member 8 (SLC2A8), mRNA. [Source:RefSeq mRNA;Acc:NM_201528]
Coordinates
chr11:98165865-98166925:+
Coord C1 exon
chr11:98165865-98166064
Coord A exon
chr11:98166065-98166781
Coord C2 exon
chr11:98166782-98166925
Length
717 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCCGGTGTCCATCTGAGCAGGAC
3' ss Score
5.9
Exon sequences
Seq C1 exon
GCTGGGTGCTCGAGTGGCGCTGGCTGGCCGTGCTGGGCTGTGTGGCCCCCTCCTTCATGCTGCTGCTCATGTGTTTCATGCCTGAGACCCCTCGCTTCCTGCTGTCTCAGCACAAGCACCAGGAGGCCATGGCCGCCATGCAGTTCCTGTGGGGCTATGCCCAGGGTTGGGAGGAGCCTCCCCTTGGGGCTCAGCACCAG
Seq A exon
GTGAGGGGCTGGGAGCCAGCGCGCGGGGAGGGGGACCCGGGAGAATCGCCCCTGAGGTCAACACAGAGCGGCACCGCAGCTCCACACGTGTGTGCTCACACACGTACACACGAGGGCCCGTGGACTTGGGAGTGATGTCCTGTGGACCACTACTTGGCCAGACCCAAGTCTGAGCCCCAATCTCCCTGTCCCTGGAAGAGAAGGGCTGGGCCATGTCAGAGGAGAATGCAGGTGGGGACTGGAGGACTCGGAATTTTGAAACAGGGAGCTGTAGGGCCAGGGAGAATGTTGAGTCTCTGCCTCTTACCTGCTGTGTGACCGTCCCATCTTTAACCTGAGTTTCTTCCCTGGTAAAGTGGGGTCATAGCACGTGCCTGGCGGTGGTGGTAAGGATCAATGGGGCCAGGGAAGGTACTTGGCCCAGACCCAGACCCAAGGCTGGTAGGACTTGGGAACCCTGGGTTCTCTGCTCATAGAGCATCTCCGTGGATCCCCCAGCAAATCAGGAAGGGACATGAGGAGGGGAGGATCCTGTCACCTTACTAATGGGGAGGCTACAGTGATGCTGGGACCTGAAGCAGAGGCTACAGGTGGGGCTGGGACAAAATGCAGAGGCTCCCTCGCTCCAGCAGGCCCCAGGATGGGAGGGAGCTCAGAGCCGGGGTGCCCTTAGGAGAAGTAAAGAGAAGCCCTGATGCCCGGTGTCCATCTGAGCAG
Seq C2 exon
GACTTCCACGTGGCCCAGCTGCGGCGTCCTGGTGTCTACAAGCCCTTCATCATCGGCATCTCCCTGATGGCCTTCCAGCAGCTGTCAGGCGTCAATGCCGTCATGTTCTACGCGGAGACCATCTTTGAGGAGGCTAAGTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006957:ENSBTAT00000009144:5
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(14.8=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGCCCCCTCCTTCATG
R:
TGAACTTAGCCTCCTCAAAGATGG
Band lengths:
302-1019
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development