HsaEX0056833 @ hg19
Exon Skipping
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:29006]
Coordinates
chr9:139342536-139350245:-
Coord C1 exon
chr9:139350053-139350245
Coord A exon
chr9:139348561-139348779
Coord C2 exon
chr9:139342536-139342613
Length
219 bp
Sequences
Splice sites
3' ss Seq
TCTCCACCGTTCCCATGCAGCTC
3' ss Score
8.8
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
Exon sequences
Seq C1 exon
GAGGGGGCTGGAGTATGGCATCAGGATGGAGCCCTCCCGCAGCAGTGTCCTGGCACTCCGAGTTCCGAGATGGAGCAGTTGGACAGGCCAGGACTCAGTCAGCCAGGAGCCCTGGGGATCGCCAACCCTCTGCTGGCGGTGCCTGCACCGAGCCCTGAGCACTCGAGCCCGAGCGTGCGGCTGCTGCCCTCAG
Seq A exon
CTCCGCAGACGCTCCCTGACGGCCCATTGGCCAGTCCTGCCAGAGTGCCGATGTTCCCAGTGCCACTGCCCCCGGGGCCCCTGGAGCCGGGTCCTGGCTGTGTGACCCCAGGGCCTGCACTTGGCTTCCTGGAGCCCTCCGGGCCTGGCCTCCCACCTGGTGTGCCACCTCTGCAGGAAAGGAGACACTTGCTCCAGGAAGCCAGGAGCCCAGACCCAG
Seq C2 exon
GGTGAATCCTGGTTCTTTCGTTGGCTACCTGGAAAGAAAAAGACAGAAGCTTATTTGCCAGATGACAAGAACAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396_MULTIEX3-1/3=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.938 A=1.000 C2=0.651
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGCTGGAGTATGGCATCAG
R:
CGATTTGTTCTTGTCATCTGGCA
Band lengths:
268-487
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)