HsaALTA0007946-1/3 @ hg19
Alternative 3'ss
Gene
ENSG00000080189 | SLC35C2
Description
solute carrier family 35, member C2 [Source:HGNC Symbol;Acc:17117]
Coordinates
chr20:44983743-44984513:-
Coord C1 exon
chr20:44984441-44984513
Coord A exon
NA
Coord C2 exon
chr20:44983743-44983817
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
TCTTCATGTTCACCTACAAGTCC
3' ss Score
2.26
Exon sequences
Seq C1 exon
GTACACAATGACCAAATCCTCAGCTGTCCTCTTCATCTTGATCTTCTCTCTGATCTTCAAGCTGGAGGAGCTG
Seq A exon
NA
Seq C2 exon
TCCACACAGTTCAACGTGGAGGGCTTCGCCTTGGTGCTGGGGGCCTCGTTCATCGGTGGCATTCGCTGGACCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080189-9-16,9-14,9-13-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0089215=EamA=FE(16.4=100)
A:
NA
C2:
PF0315111=TPT=PU(18.5=77.8)
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACCAAATCCTCAGCTGTCC
R:
CAGCGAATGCCACCGATGAA
Band lengths:
133-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)