MmuALTD1041980-2/8 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000040722 | Scamp5
Description
secretory carrier membrane protein 5 [Source:MGI Symbol;Acc:MGI:1928948]
Coordinates
chr9:57451980-57468033:-
Coord C1 exon
chr9:57467933-57468033
Coord A exon
chr9:57467816-57467932
Coord C2 exon
chr9:57451980-57452034
Length
117 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGT
5' ss Score
6.59
3' ss Seq
GAGTCTTTCTTTCCTTCCAGGTC
3' ss Score
11.67
Exon sequences
Seq C1 exon
CGGGAGCCGCTCGCGGCCCGCTCCGCGCCTGATCGCCCGGTGCAGCGCAGCTCAGCGCGGCGCAGCGCGACTACCTTTCTGCAGCCGAGCGGTCGGGGCTG
Seq A exon
GTGAGTCCTGGGCCTGGAGACCCAAGGAGGGCACTGCGGGGAAGCTACGAGCTGGGTTGGAGAGGTGTCAGCGGCTCCAATTTTCTGCCTTCAAAGAGTCCCTCTTCATTTGAGGGG
Seq C2 exon
GTCAGGACAAAGAGGTGTGAGCAGGCTTACTGAGCTGGCTGATCCATCATGGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040722-0-3,1-3,2-3,3-3,4-3,5-3,6-3,7-3-2/8
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.143
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGACTACCTTTCTGCAGCC
R:
CCGCCATGATGGATCAGCC
Band lengths:
90-207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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