BtaINT0135364 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003635 | SLC35C2
Description
solute carrier family 35 (GDP-fucose transporter), member C2 [Source:HGNC Symbol;Acc:HGNC:17117]
Coordinates
chr13:75799806-75800611:-
Coord C1 exon
chr13:75800482-75800611
Coord A exon
chr13:75800155-75800481
Coord C2 exon
chr13:75799806-75800154
Length
327 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCC
5' ss Score
7.84
3' ss Seq
GCTGCTGTCTCTGTCCCCAGGTG
3' ss Score
12.79
Exon sequences
Seq C1 exon
GAAGTCTGCACTTTGCTGTTGGCCGCGCATCTTCTGGGTGACCAGATCAGCCTCCTGAACTGGCTGGGCTTTGCCCTCTGCCTCTCAGGAATATCTCTGCACATCGCCCTCAAAGCCCTGCATGCCAGAG
Seq A exon
GTACCCAGAGCCCCCTTTCGGAAGCCTGTCTCCTGGTGACGCTCTCCCCCTGGATCTCCCCTCTGCCCATCCCTGCCAGGAGGCAGGTGGCTCTCAACCCCCCAGGCCATTTGCAGTCCAGTCTGCTCAGTTCAGCTGCCCCTGCCCTGGCTGTTCCTCTAATTAAGGGAGTTCGCCTGGTGATTCGACCACCTCCACTCCTCCAAGAAGTTGTGGGGGTCATCTCCAGGGAGTGGGCGGGGGCCTGGGTCCCTCGGCACGCTCTCCTGTCAGGCTGGGGCAGGCAGATCCTTGCTGGATGTGTGATGCTGCTGTCTCTGTCCCCAG
Seq C2 exon
GTGATGGCGCCCCTAAGCCCCTGAAGGGGCTGGGCTCCAACCCCGACCTGGAGCTGCTGCTCCGGAGCAGCCAGCCAGAGGATGAGGACAACGAGGAGGAGGAATACTTTGTGGCCCAGGGGCAGCAGTGAGCAGCCGGGGGACCAGTCAGCGGCTTGGGGACCCGGGTGGTTCCTCCCGGCCGCCGGGCAGCAGTGGGCCCAGCATCTCCCGGGCCAGGCCTCGGAAGGGCATGCGACCGGTGCTGGGGCCAGGGCAGAGAGCTGGTGTGCTGGGTGGGCGCCAGGCCAGCCTCTGGCCTGGCCGGAGCAGGGGCCCAGCGCACTGGTGTCGCAGCAGGAGCAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003635:ENSBTAT00000039194:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.326
Domain overlap (PFAM):
C1:
PF0315111=TPT=PD(36.8=79.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAACTGGCTGGGCTTTG
R:
CAGCACACCAGCTCTCTGC
Band lengths:
351-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development