HsaALTA0007509-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000140497 | SCAMP2
Description
secretory carrier membrane protein 2 [Source:HGNC Symbol;Acc:10564]
Coordinates
chr15:75143696-75144527:-
Coord C1 exon
chr15:75144410-75144527
Coord A exon
chr15:75143748-75143822
Coord C2 exon
chr15:75143696-75143747
Length
75 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
ACTCTTTTTGCCCTACCCAGTGA
3' ss Score
6.51
Exon sequences
Seq C1 exon
GCCGTGGTGTCTGCAGCCCAGGCAGGCCTGCTCCGGCAGCAGGAAGAACTGGACAGGAAAGCTGCCGAGCTGGAACGCAAGGAGCGGGAGCTGCAGAACACTGTAGCCAACTTGCATG
Seq A exon
TGAGACAGAACAACTGGCCCCCTCTGCCCTCGTGGTGCCCTGTGAAGCCCTGCTTCTATCAGGATTTCTCCACAG
Seq C2 exon
AGATCCCTGCCGACTACCAGCGGATATGCAAGATGCTCTACTATCTGTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000140497-5-6,5-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF152631=DUF4593=PD(33.3=45.0),PF117403=KfrA_N=FE(50.0=100),PF120723=DUF3552=FE(83.0=100),PF049918=LicD=FE(47.6=100)
A:
NA
C2:
PF117403=KfrA_N=PD(7.5=9.1),PF120723=DUF3552=PD(10.6=11.4),PF049918=LicD=PD(34.5=88.6),PF041448=SCAMP=PU(43.8=95.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGTCTGCAGCCCAG
R:
ATCCACAGATAGTAGAGCATCTTGC
Band lengths:
167-242
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)