DreALTA0027272-2/4 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000037517 | slc35c2
Description
solute carrier family 35 (GDP-fucose transporter), member C2 [Source:ZFIN;Acc:ZDB-GENE-030131-2202]
Coordinates
chr23:20509156-20512746:+
Coord C1 exon
chr23:20509156-20509228
Coord A exon
chr23:20512585-20512622
Coord C2 exon
chr23:20512623-20512746
Length
38 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
GACCATTTTCACACCAACAGAAT
3' ss Score
6.72
Exon sequences
Seq C1 exon
GTACACCATGACCAAGTCTTCAGCTGTTCTTTTCATTCTGTTTTTCTCCTTGCTATTCAAACTGGAGGAGCCG
Seq A exon
AATCCATTCCTGATCCTGGTGGTTGTCCTGATTTCCAG
Seq C2 exon
TGGTCTCTTCATGTTCACTCTCAAGTCCACTCAGTTTAATCTGGAGGGTTTCATCATGGTCCTGTTAGCCTCTTTTATCGGAGGAATCCGCTGGACTCTCACTCAGTTGCTCATGCAGAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037517-7-11,7-10,7-9,7-8-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0089215=EamA=FE(17.3=100),PF065706=DUF1129=PU(0.1=0.0)
A:
NA
C2:
PF0089215=EamA=PD(13.7=33.3),PF065706=DUF1129=FE(56.6=100),PF0315111=TPT=PU(18.5=49.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATTCAAACTGGAGGAGCCG
R:
TGAGTGAGAGTCCAGCGGATT
Band lengths:
127-165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]