HsaEX0056354 @ hg38
Exon Skipping
Gene
ENSG00000085365 | SCAMP1
Description
secretory carrier membrane protein 1 [Source:HGNC Symbol;Acc:HGNC:10563]
Coordinates
chr5:78421801-78459362:+
Coord C1 exon
chr5:78421801-78421960
Coord A exon
chr5:78449933-78450034
Coord C2 exon
chr5:78459245-78459362
Length
102 bp
Sequences
Splice sites
3' ss Seq
TTTCTTTTTTTTTTTCAAAGGAG
3' ss Score
8.44
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
TCCATGCAGTAACACTGTTTCTAAATATCTTCGGATGCTTGGCTTGGTTTTGTGTTGATTCTGCAAGAGCGGTTGATTTTGGATTGAGTATCCTGTGGTTCTTGCTTTTTACTCCTTGTTCATTTGTCTGTTGGTACAGACCACTTTATGGAGCTTTCAG
Seq A exon
GAGTGACAGTTCATTTAGATTCTTTGTATTCTTCTTCGTCTATATTTGTCAGTTTGCTGTACATGTACTCCAAGCTGCAGGATTTCATAACTGGGGCAATTG
Seq C2 exon
TGGTTGGATTTCATCCCTTACTGGTCTCAACCAAAATATTCCTGTTGGAATCATGATGATAATCATAGCAGCACTTTTCACAGCATCAGCAGTCATCTCACTAGTTATGTTCAAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000085365-'30-37,'30-30,37-37
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(55.2=100),PF041448=SCAMP=PU(2.0=1.9)
A:
PF041448=SCAMP=FE(19.1=100)
C2:
PF041448=SCAMP=PD(0.1=0.0),PF041448=SCAMP=FE(76.5=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTTCGGATGCTTGGCTTGG
R:
ATAACTAGTGAGATGACTGCTGATGC
Band lengths:
242-344
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