MmuALTA0016016-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000026924 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:MGI Symbol;Acc:MGI:2139207]
Coordinates
chr2:26438387-26439755:-
Coord C1 exon
chr2:26439515-26439755
Coord A exon
chr2:26438466-26438818
Coord C2 exon
chr2:26438387-26438465
Length
353 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
AGGATCATTTCTACCAGCAGGTA
3' ss Score
4.79
Exon sequences
Seq C1 exon
ACAAAATGAGCTGCCAGATTTTGGTGGCAATGTCCTTCTAGCCCCTGCTGCCCCTGCACTTTATGTTCCTGTAAAACCAAAACCTTCAGAGGTTGTTCATCATCCAGAAAAGGGAATGTCTGGACAGAAGGCCTGGAAACAAGGGTCTGTGCCACCTTTGCAGAACCAAGACCCTCCTGGTGCTTCTGAGAACCTTGAGAACCCTCCCAAGGTAGGAGAAGAGGAGGCCCTTCCAGTGCAG
Seq A exon
GTAACAAAAGATGCTCAGGACCAGCATAGACTAGAAAGAGCCCAGCCAGAGCTGGTGCCTCCTCGGCCACAGAATTCTCCCCAAGTGCCCCAAGCATCGTGTCCAGAGCCTTCAAATCCTGAAAGCCCACCCACACAAGGACAGTCTGAAAGCTTGGCCCAGCCACCAGCAAGTCCAGCTTCAGTCAACACAGGCCAGCTGCTGCCTCAGCCACCACAGGCTTCCAGTGCATCCGTTACATCTACCAACTCCAGCCAGGCAGCTGTGCGGTCAGAGCAGCTGTGGCTACACCCACCACCTCCTAATACTTTTGGCCCAGCACCTCAAGACTTGGCATCCTACTACTATTACAG
Seq C2 exon
ACCCCTGTATGATGCCTACCAGTCTCAGTACCCTTCACCGTACCCGTCAGATCCTGGGACAGCCTCGCTGTACTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026924-7-4,7-3,7-2-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.855
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAATGAGCTGCCAGATTTTG
R:
CTGGTAGTACAGCGAGGCT
Band lengths:
320-673
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