MmuINT1032586 @ mm10
Intron Retention
Gene
ENSMUSG00000067629 | Syngap1
Description
synaptic Ras GTPase activating protein 1 homolog (rat) [Source:MGI Symbol;Acc:MGI:3039785]
Coordinates
chr17:26959932-26960521:+
Coord C1 exon
chr17:26959932-26960133
Coord A exon
chr17:26960134-26960342
Coord C2 exon
chr17:26960343-26960521
Length
209 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TGACAGCCTTGTCCTTCCAGGAA
3' ss Score
8.93
Exon sequences
Seq C1 exon
GTTTACCTCAAAGGAGGACTTCCTGGGCTTCATGAATGAGTTTCTGGAGCTGGAGTGGGGCTCTATGCAGCAGTTCTTGTATGAGATATCCAACCTGGACACCTTGACCAACAGCAGCAGTTTTGAGGGCTATATAGACTTGGGCCGCGAGCTCTCCACACTTCACGCCCTGCTCTGGGAGGTGCTGCCCCAGCTCAGCAAG
Seq A exon
GTCAGTGGAGGTCCCCTCTGTCCCATCTCCAGGTACTTCCAGAGGCACCTGGGCTGAGAGATTATCTCTGCACAGAACTCTTGTCACCTTCCTGTTCCCAGAAATGTCACCACCACTTCCAGTACACATCACAAAACCTCTACCCATGGCCTCTGAGGCCCTCTTAGAACTGGGCACTTACTCATCAAGTGACAGCCTTGTCCTTCCAG
Seq C2 exon
GAAGCCCTCCTGAAGCTGGGCCCACTGCCCCGGCTCCTCAATGACATCAGCACAGCCCTGAGGAACCCTAACATCCAAAGGCAGCCAAGCCGCCAGAGTGAACGGACTCGGTCTCAGCCCATGGTGCTGCGAGGGCCATCAGCCGAGATGCAGGGCTACATGATGCGGGACCTCAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067629:ENSMUST00000194598:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.590
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120043=DUF3498=PU(58.0=78.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACTTCCTGGGCTTCATGA
R:
GAGACCGAGTCCGTTCACTCT
Band lengths:
303-512
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