HsaEX0056836 @ hg19
Exon Skipping
Gene
ENSG00000120341 | SEC16B
Description
Protein transport protein Sec16B [Source:UniProtKB/Swiss-Prot;Acc:Q96JE7]
Coordinates
chr1:178002162-178006936:-
Coord C1 exon
chr1:178006829-178006936
Coord A exon
chr1:178003840-178003936
Coord C2 exon
chr1:178002162-178002220
Length
97 bp
Sequences
Splice sites
3' ss Seq
CTGCTCTATTTCTTTTGTAGGTC
3' ss Score
11.28
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
GAGAGCCGGACAGGGCAGCGGCCGGCACTACCGCGCTGCGATTTGCGCAGAGCTGAAGAAGCCCCTGACCATTGAAGAGGTGGCCCCCGCCCCGTCGGGCCTCACGAG
Seq A exon
GTCAGAGTTGATGTCCATTTCTGTGGAGTTAACTTTGGTGATATTTTGATCTGCCGTGATCAATATCAGGAAAGGCCCCATCTTCCCTTCACACCTG
Seq C2 exon
GAATGGACTTTTCTGGGACAGTATTGGAGACAGGCACAGATGTCAGGACAGTTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341-'1-2,'1-1,3-2
Average complexity
C2
Mappability confidence:
86%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGAAGCCCCTGACCATT
R:
TTAACTGTCCTGACATCTGTGCC
Band lengths:
111-208
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)