DreINT0150751 @ danRer10
Intron Retention
Gene
ENSDARG00000037517 | slc35c2
Description
solute carrier family 35 (GDP-fucose transporter), member C2 [Source:ZFIN;Acc:ZDB-GENE-030131-2202]
Coordinates
chr23:20558046-20558402:+
Coord C1 exon
chr23:20558046-20558191
Coord A exon
chr23:20558192-20558272
Coord C2 exon
chr23:20558273-20558402
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GGTTTTCTTTTTTGTGCCAGGTG
3' ss Score
9.06
Exon sequences
Seq C1 exon
TACCGTTGGCAATCCCTGAGGCTCTGGAGGTCACAGCCTCCTCTGCCAGCAGTCTGCGGGTGCGCTGGCAGCCGGCTGCTGGAGCCACACAGTACATGGCCTTATACTCAGCACTCAATGATGGAGAGCCTGATGATGCCAAAGAG
Seq A exon
GTGAGTGCAGGATTGTGTGTCATGTCACCATGTGGCTCTTATTTTAATATAATGGTTTTGTGGTTTTCTTTTTTGTGCCAG
Seq C2 exon
GTGAAGTTTGGACCTGCTCAGACAGATGTTGAATTGGTGGATTTGATCCCATCCACGGATTATTCAGTCACACTTTATGCACTGTATGATGAGGACCCCAGTGACCCAATCACAGCCATCGGCACCACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037517:ENSDART00000132920:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.136
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(54.9=91.8)
A:
NA
C2:
PF0004116=fn3=PD(42.7=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGAGCCACACAGTACATG
R:
GGTCACTGGGGTCCTCATCAT
Band lengths:
175-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]