HsaALTA0004710-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000143418 | LASS2
Description
ceramide synthase 2 [Source:HGNC Symbol;Acc:14076]
Coordinates
chr1:150941394-150947479:-
Coord C1 exon
chr1:150947095-150947479
Coord A exon
chr1:150941568-150941607
Coord C2 exon
chr1:150941394-150941567
Length
40 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
ATCTATCTCTTCCTCCATAGCTA
3' ss Score
9.05
Exon sequences
Seq C1 exon
AGCGCAAGGTGACGGGCGTGGACGCGGCTGTGGGGCCGGGAGCGGAGGGTTGGGGTCTGGCCTCCCGCGCCGGGGCGAAGGGGCAGCCGCAGCGCAGAGGCCCGCCCCGCCCTCCCCTCCCGTCACGCCCAGCCTCCCGGCCCTTGGGCTGCTCGCGGCCTTTTTTTCCCGGCTGGGCTCGGGCTCAGCTCGACTGGGCTCGGCGGGCGGCGGCGGCGGCGCCGGCGGCTGGCGGAGGAGGGAGGGCGAGGGCGGGCGCGGGCCGGCGGGCGGGCGGAAGAGGGAGGAGAGGCGCGGGGAGCCAGGCCTCGGGGCCTCGGAGCAACCACCCGAGCAGACGGAGTACACGGAGCAGCGGCCCCGGCCCCGCCAACGCTGCCGCCGG
Seq A exon
CTACTCCCTCTTGATGCCCTCCCCTTTGCCCCTCACTCAG
Seq C2 exon
GATGCTCCAGACCTTGTATGATTACTTCTGGTGGGAACGTCTGTGGCTGCCTGTGAACTTGACCTGGGCCGATCTAGAAGACCGAGATGGACGTGTCTACGCCAAAGCCTCAGATCTCTATATCACGCTGCCCCTGGCCTTGCTCTTCCTCATCGTTCGATACTTCTTTGAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143418-2-6,2-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACCACCCGAGCAGAC
R:
TCTAGATCGGCCCAGGTCAAG
Band lengths:
142-182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)