HsaEX0056364 @ hg19
Exon Skipping
Gene
ENSG00000227500 | SCAMP4
Description
secretory carrier membrane protein 4 [Source:HGNC Symbol;Acc:30385]
Coordinates
chr19:1918126-1923186:+
Coord C1 exon
chr19:1918126-1918282
Coord A exon
chr19:1918888-1918989
Coord C2 exon
chr19:1923069-1923186
Length
102 bp
Sequences
Splice sites
3' ss Seq
TGTTTTCTGTCCCTCCCCAGAGC
3' ss Score
12.12
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
Exon sequences
Seq C1 exon
TTTACTGCGCCACCCTCGGCGTCAACCTCATTGCCTGCCTGGCCTGGTGGATCGGCGGAGGCTCGGGGACCAACTTCGGCCTGGCCTTCGTGTGGCTGCTCCTGTTCACGCCTTGCGGCTACGTGTGCTGGTTCCGGCCTGTCTACAAGGCCTTCCG
Seq A exon
AGCCGACAGCTCCTTTAATTTCATGGCGTTTTTCTTCATCTTCGGAGCCCAGTTTGTCCTGACCGTCATCCAGGCGATTGGCTTCTCCGGCTGGGGCGCGTG
Seq C2 exon
CGGCTGGCTGTCGGCAATTGGATTCTTCCAGTACAGCCCGGGCGCTGCCGTGGTCATGCTGCTTCCAGCCATCATGTTCTCCGTGTCGGCTGCCATGATGGCCATCGCGATCATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000227500_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF041448=SCAMP=FE(54.7=100),PF041448=SCAMP=PU(2.0=1.9)
A:
PF041448=SCAMP=FE(19.2=100)
C2:
PF041448=SCAMP=PD(0.1=0.0),PF041448=SCAMP=FE(78.0=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAACCTCATTGCCTGCCTG
R:
TTCATGATCGCGATGGCCATC
Band lengths:
254-356
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)