MmuALTA0015887-1/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000028049 | Scamp3
Description
secretory carrier membrane protein 3 [Source:MGI Symbol;Acc:MGI:1346346]
Coordinates
chr3:89179317-89180380:+
Coord C1 exon
chr3:89179317-89179437
Coord A exon
NA
Coord C2 exon
chr3:89180252-89180380
Length
0 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CCTGGTTTTGTGCCTTACAGCTC
3' ss Score
9.82
Exon sequences
Seq C1 exon
GCCTCAGCTGCAGCGGCCACTGCTGAGCTGCTGAAGAAGCAGGAGGAACTCAACCGCAAGGCAGAGGAGTTGGACCGCCGGGAGCGAGAACTGCAGCATGTCGCCCTGGGTGGTGCAGGCA
Seq A exon
NA
Seq C2 exon
CTCGACAGAACAACTGGCCTCCCCTACCGTCTTTTTGCCCTGTAAAGCCTTGCTTTTTCCAAGACATCTCTATGGAGATACCCCAAGAATTTCAGAAGACGGTGTCCACCATGTACTACCTCTGGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028049-4-8,4-7-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.715 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
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCACTGCTGAGCTGCT
R:
ACATCCAGAGGTAGTACATGGTGG
Band lengths:
236-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types