HsaEX0056824 @ hg19
Exon Skipping
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:29006]
Coordinates
chr9:139334549-139339563:-
Coord C1 exon
chr9:139339504-139339563
Coord A exon
chr9:139338275-139338352
Coord C2 exon
chr9:139334549-139336275
Length
78 bp
Sequences
Splice sites
3' ss Seq
GACTTCTCTGTGCTTCTCAGGCT
3' ss Score
7.74
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
CTTTCGCGCTGTAGTTCAATGAGTTCATTATCACGTGAAGTGAGCCAGCATTTTAATCAG
Seq A exon
GCTCCTGGCGACCTCCCTGCTGCAGGGGGCCCTCCCAGCGGGGCCATGCCCTTCTACAACCCTGCTCAGCTGGCACAG
Seq C2 exon
GCCTGCGCCACCTCCGGGAGCTCAAGGCTAGGGAGGATTGGCCAGAGGAAGCACCTGGTGCTGAACTAGGCTTGCCCTGCTGTGAACTTGCACTTGGAGCCCTGACGCTGCTGTTCTCCCCGAAGAACCCGACCGACCTCCGCGATCTCCGTCCCGCCCCCAGGGAGACACAGCAGTGACTCAGAGCTGGTCGCACACTGTGCCTCCCTCCTCACCGCCCATCGTAATGAATTATTTTGAAAATTAATTCCACCATCCTTTCAGATTCTGGATGGAAAGACTGAATCTTTGACTCAGAATTGTTTGCCGAAAAGAATGATGTGACTTTCTTAGTCATTTAGGATGATTTAAGGATATAGTATTCCTGGTCATTTAAGAATGTTCATTCATTGAAGCCGGAGCTGTCTCTGCCACAGGAGAGCCACATGGTCGGTAGTAACCAGGGCCTCTCCAAGCCCAGCTGTGAGTCACTGCCCAGTGAGTCCCGCGCTTCCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396-'39-47,'39-46,40-47
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.992 C2=0.922
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
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:
ACGTGAAGTGAGCCAGCATTT
R:
GGAGGTCGGTCGGGTTCTTC
Band lengths:
169-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)