HsaALTA0007510-3/3 @ hg19
Alternative 3'ss
Gene
ENSG00000116521 | SCAMP3
Description
secretory carrier membrane protein 3 [Source:HGNC Symbol;Acc:10565]
Coordinates
chr1:155228619-155230241:-
Coord C1 exon
chr1:155230121-155230241
Coord A exon
chr1:155228684-155228745
Coord C2 exon
chr1:155228619-155228683
Length
62 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGT
5' ss Score
8.78
3' ss Seq
TGTTTTTTTGTGCCTTACAGCTC
3' ss Score
11.18
Exon sequences
Seq C1 exon
GCCTCAGCTGCAGCAGCCACAGCTGAGCTGCTGAAGAAACAGGAGGAGCTCAACCGGAAGGCAGAGGAGTTGGACCGAAGGGAGCGAGAGCTGCAGCATGCTGCCCTGGGGGGCACAGCTA
Seq A exon
CTCGACAGAACAATTGGCCCCCTCTACCTTCTTTTTGTCCAGTTCAGCCCTGCTTTTTCCAG
Seq C2 exon
GACATCTCCATGGAGATCCCCCAAGAATTTCAGAAGACTGTATCCACCATGTACTACCTCTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116521-6-8,6-7,6-6-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.805 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF049918=LicD=FE(36.4=100)
A:
NA
C2:
PF049918=LicD=PD(35.5=88.6),PF041448=SCAMP=PU(23.6=95.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGGAGCTCAACCGGAAG
R:
TCCAGAGGTAGTACATGGTGGA
Band lengths:
145-207
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)