HsaEX0056838 @ hg19
Exon Skipping
Gene
ENSG00000120341 | SEC16B
Description
Protein transport protein Sec16B [Source:UniProtKB/Swiss-Prot;Acc:Q96JE7]
Coordinates
chr1:177936818-177942444:-
Coord C1 exon
chr1:177942328-177942444
Coord A exon
chr1:177940531-177940602
Coord C2 exon
chr1:177936818-177937174
Length
72 bp
Sequences
Splice sites
3' ss Seq
ATGTGCATGTTCTTCTCTAGTTC
3' ss Score
8.27
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
Exon sequences
Seq C1 exon
TAAAGGATTAGGATGAAGCCTGAGGGATGTCTTAAATGCTGAGCTGCCCTTTGCAAGAGTAACCAGTCATTAAATCACAGTGCTCAAGGATTCCTGGCAAACCTGACCTAGATCTAG
Seq A exon
TTCCTCTTCCCAGAAGGATTAAAAACAACAGTGCAGCCATTAGAGAGCCAAACTTCACAGCCCAAGAGTGAG
Seq C2 exon
GAAGATAAAATAACTGCACAACTTACTCAAAACCCAGGACAAATTCAGAGAGTCAAGGATGGAACTTTGGGCTCCCCAGAGGCTGCCCCAGACACGAGGGAAGGCCACAGCACCCTCAAAGGATCCAGACCGAGGGTTTCGGAGAGATGGACATCATCGGCCTGTCCCTCACTCTTGGCACAATGGAGAGAGGTTTCACCAATGGCAAGACAACCGTGGGAGCCCCCAGCCACAGCAGGAGCCCAGGGCAGACCATCAGCAGCAGCCCCATTATGCATCCAGGCCAGGGGACTGGCATCAGCCTGTGTCTGGAGTTGACTATTACGAAGGTGGTTATCGCAATCAGTTGTATTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341-'17-21,'17-17,18-21
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.910
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GTGCTCAAGGATTCCTGGCAA
R:
TCTGGATCCTTTGAGGGTGCT
Band lengths:
167-239
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)