BtaINT0135359 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003635 | SLC35C2
Description
solute carrier family 35 (GDP-fucose transporter), member C2 [Source:HGNC Symbol;Acc:HGNC:17117]
Coordinates
chr13:75805603-75805916:-
Coord C1 exon
chr13:75805909-75805916
Coord A exon
chr13:75805673-75805908
Coord C2 exon
chr13:75805603-75805672
Length
236 bp
Sequences
Splice sites
5' ss Seq
CCGGTGGGG
5' ss Score
5.26
3' ss Seq
CCCACGGGTGCCCTGTGTCTCCA
3' ss Score
-11.74
Exon sequences
Seq C1 exon
AGTTTCCG
Seq A exon
GTGGGGGGTCCTCAGGATCAAGTGAACACCCCTCCCTCATGGGGGTGGGGGCGTGGCATTCCTAATATCCAACAAGTGGGAAGCGGTTAGACAGTGGACTGTTGCCCTAATGCTGGAGCAGCCCCCTCCGCTTTAGGGGCGTGGGGCCAGGAGTTAACCCTTCAGTTGCTGGGTGGAAAAGAAAGCTCCAGGAGGGCTCCTACCCGGGCGGGGTGTCCCACGGGTGCCCTGTGTCT
Seq C2 exon
CCACAGCACTGGCCACAGCGCTGGATGTGGGCTTGTCCAACTGGAGCTTCCTCTACATCACCGTCTCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003635:ENSBTAT00000039194:4
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:
PF084496=UAA=FE(2.4=100)
A:
NA
C2:
PF084496=UAA=FE(18.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development