MmuALTD0013693-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000026718 | Stam
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 [Source:MGI Symbol;Acc:MGI:1329014]
Coordinates
chr2:14074427-14102485:+
Coord C1 exon
chr2:14074427-14074547
Coord A exon
chr2:14074548-14074764
Coord C2 exon
chr2:14102401-14102485
Length
217 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
TCTTCTTTTCTCATCTACAGAGA
3' ss Score
10.64
Exon sequences
Seq C1 exon
CCGAGGCCGAGCCCACGTTCTTCTCTCCCGGGGCCCCTTCGTTCAGAGTTGGGAGAGGGTTGAGCGCTTGGCGCATCCTCTTTGGAAGAAATGGGACTTAGAACCTCTCTAATGGGCCTTG
Seq A exon
GTAAGGGACTTGGGGAGGGGGAGCTTTGAAGGAATCGCTTAAGGGATTCGGGGTAAAGGGTTGCCTCGGGAGGAACAGACGACGAAGCCATCTGCCGCTGGGGCATGGCTTCTGGGAGAAGAGCGAAGGACAGACGTATCTTGGCTTAAGCAGATTGATTATATGCTCTATCGCCAAAGTATTTGCCTGGCCCAATGGAACTGGCAGAATGTTTTAG
Seq C2 exon
AGAAAGCAACTAGTGAGTTGAATACTGCTGAGGACTGGGGCCTCATCTTGGATATTTGTGATAAGGTTGGCCAATCTCGCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026718-1-3,2-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0079014=VHS=PU(5.3=63.6),PF136461=HEAT_2=PU(0.8=9.1)
A:
NA
C2:
PF0079014=VHS=FE(21.1=100),PF136461=HEAT_2=FE(22.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
CGAGCCCACGTTCTTCTCTC
R:
GTGCGAGATTGGCCAACCTTA
Band lengths:
196-413
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