HsaEX0059536 @ hg19
Exon Skipping
Gene
ENSG00000169507 | SLC38A11
Description
solute carrier family 38, member 11 [Source:HGNC Symbol;Acc:26836]
Coordinates
chr2:165768146-165772483:-
Coord C1 exon
chr2:165772413-165772483
Coord A exon
chr2:165771622-165771783
Coord C2 exon
chr2:165768146-165768258
Length
162 bp
Sequences
Splice sites
3' ss Seq
TCTTTTTTTTTGTATTGCAGCAT
3' ss Score
10.41
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
Exon sequences
Seq C1 exon
ACCAAAAACAGAAGACGCTTGGGTATTTGCAAAGCCCAATGCCATTCAAGCGGTCGGGGTTATGTCTTTTG
Seq A exon
CATTTATTTGCCACCATAACTCCTTCTTAGTTTACAGTTCTCTAGAAGAACCCACAGTAGCTAAGTGGTCCCGCCTTATCCATATGTCCATCGTGATTTCTGTATTTATCTGTATATTCTTTGCTACATGTGGATACTTGACATTTACTGGCTTCACCCAAG
Seq C2 exon
GGGACTTATTTGAAAATTACTGCAGAAATGATGACCTGGTAACATTTGGAAGATTTTGTTATGGTGTCACTGTCATTTTGACATACCCTATGGAATGCTTTGTGACAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169507_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0149013=Aa_trans=PU(8.8=40.0)
A:
PF0149013=Aa_trans=FE(15.8=100)
C2:
PF0149013=Aa_trans=FE(10.8=100)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAAAACAGAAGACGCTTGGG
R:
TTGTCACAAAGCATTCCATAGGGT
Band lengths:
178-340
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)