HsaEX0056848 @ hg19
Exon Skipping
Gene
ENSG00000120341 | SEC16B
Description
Protein transport protein Sec16B [Source:UniProtKB/Swiss-Prot;Acc:Q96JE7]
Coordinates
chr1:177995207-178001630:-
Coord C1 exon
chr1:178001565-178001630
Coord A exon
chr1:178000686-178000795
Coord C2 exon
chr1:177995207-177995390
Length
110 bp
Sequences
Splice sites
3' ss Seq
CACTGTTATCTCTTTTTTAGGAC
3' ss Score
11.83
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
Exon sequences
Seq C1 exon
GGAGATAGAGTTATTGGCACAAGAAACTTTAATTGTATGGCTGAAGAATGCGTCACTGACCAGAAG
Seq A exon
GACCTGTGGCAGATTCCAGAAAAGGTCTCCCTATAAGAAGCTGCTGTCCTCCCTATAACTTATGGCACTGCGATTTTTGCTCTTGAGCATTGGGCCCGTACCCAGCCTGG
Seq C2 exon
GTAATATAGCTGCTGCTGGAAGTGACGAGAAGTGCAAGCTGGCGATGCAGAGGGGTGCGCAGTCCAGCGTGAACTACAGTCAGGGCAGCCTGAAGGATGCAGTAAGGAAGCTGGTGGGCGAGGGCGGGGTGAATGTGGCCATCGACATGGTGGGAGGAGACATCTGCCTGGAGGCTCTCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341-'5-6,'5-4,6-6
Average complexity
C1
Mappability confidence:
100%=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:
TGGCACAAGAAACTTTAATTGTATGG
R:
CCTCCAGGCAGATGTCTCCTC
Band lengths:
226-336
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)