MmuALTA1040997-3/4 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000067629 | Syngap1
Description
synaptic Ras GTPase activating protein 1 homolog (rat) [Source:MGI Symbol;Acc:MGI:3039785]
Coordinates
chr17:26962914-26965034:+
Coord C1 exon
chr17:26962914-26963087
Coord A exon
chr17:26964827-26964922
Coord C2 exon
chr17:26964923-26965034
Length
96 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGC
5' ss Score
8.18
3' ss Seq
GTCATGTGCCCGGCGGGCAGGTG
3' ss Score
5.33
Exon sequences
Seq C1 exon
CATTCCCAGACTCCATCCACGCTTAACCCCACAATGCCAGCCTCGGAGCGGACCGTAGCCTGGGTCTCCAACATGCCTCACCTGTCGGCTGACATCGAGAGTGCACACATCGAGCGAGAAGAGTACAAGCTCAAGGAGTACTCCAAGTCCATGGACGAAAGCCGGCTGGACAGG
Seq A exon
GTGAAGGAGTATGAGGAGGAGATACATTCGCTGAAGGAGAGGCTACACATGTCCAACCGGAAGCTGGAAGAGTATGAGCGGAGGTTGCTGTCCCAG
Seq C2 exon
GAAGAACAGACCAGCAAGATCCTGATGCAGTACCAAGCCCGCCTGGAGCAGAGTGAGAAGCGCTTGAGACAGCAGCAGGTGGAGAAGGACTCCCAGATCAAGAGCATCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067629-46-40,46-39,46-38,46-37-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.945 A=NA C2=0.698
Domain overlap (PFAM):
C1:
PF120043=DUF3498=FE(29.0=100),PF071957=FliD_C=PU(38.7=49.2)
A:
NA
C2:
PF120043=DUF3498=FE(11.8=100)
Other Inclusion Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCAACATGCCTCACCTGTC
R:
CAAGCGCTTCTCACTCTGCTC
Band lengths:
175-271
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