HsaEX0056830 @ hg19
Exon Skipping
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:29006]
Coordinates
chr9:139355629-139359014:-
Coord C1 exon
chr9:139358872-139359014
Coord A exon
chr9:139358131-139358192
Coord C2 exon
chr9:139355629-139355726
Length
62 bp
Sequences
Splice sites
3' ss Seq
CCACGGCCCTCTCCTCGTAGGCC
3' ss Score
10.07
5' ss Seq
CAAGTATGT
5' ss Score
7.44
Exon sequences
Seq C1 exon
TTTCATCAAGACCAACTTCTCCTGAAAAATTTTCAGTGCCTCATGTCTGTGCCAGGTTTGGCCCTGGCGGTCAGCTTATCAAAGTGATTCCCAATCTGCCTTCAGAAGGACAGCCGGCCTTGGTGGAGGTCCACAGCATGGAG
Seq A exon
GCCTTGCTGCAGCACACGTCTGAGCAGGAGGAGATGCGGGCGTTCCCGGGACCCCTGGCCAA
Seq C2 exon
GATGCTTTGGAGTCTGCAATGAAGAATGGCCTGTGGGGTCACGCTCTGCTACTTGCAAGTAAGATGGACAGCCGGACACACGCCCGAGTCATGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396_MULTIEX2-1/3=C1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=0.667 C2=0.000
Domain overlap (PFAM):
C1:
PF129322=Sec16=PU(33.0=70.8)
A:
PF129322=Sec16=FE(19.4=100)
C2:
PF129312=Sec16_C=FE(12.3=100)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCATGTCTGTGCCAGGTTT
R:
CCCCACAGGCCATTCTTCATT
Band lengths:
143-205
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)