MmuINT1032598 @ mm10
Intron Retention
Gene
ENSMUSG00000067629 | Syngap1
Description
synaptic Ras GTPase activating protein 1 homolog (rat) [Source:MGI Symbol;Acc:MGI:3039785]
Coordinates
chr17:26955273-26957606:+
Coord C1 exon
chr17:26955273-26955371
Coord A exon
chr17:26955372-26956982
Coord C2 exon
chr17:26956983-26957606
Length
1611 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
CAACCACTTCCTCATGCCAGGAC
3' ss Score
6.72
Exon sequences
Seq C1 exon
GTAACAACATCATCTGGAACAAAATGCTTTGCCTGTCGGTCTGCAGCTGAAAGGGACAAATGGATTGAGAATCTGCAGAGGGCTGTAAAACCCAACAAG
Seq A exon
GTACTGGGGAAGAAGGGAACCAAGGAGGCTGGGGGCCTAGTGAGCTAAAGGGTGGGGATTTGGAAGGAGGGCCCTGGGGTGACTTCCATTATTCAGAATTCCCCTTTATTCCCTTTTTCCCCCAACTGCTACCTTCCATCATGCTCTACTTCCCTGCCATGAAAGCCATGAGCCAAGGATCTGATGGAAGGCCTCGCTCACACCTCACACCTAATGGGTGGTCTTCCAGCTGCACTCGCAGTACTTTGTGAACCCTGGCTCTCTTTATAAAGTCTACCAAGTACAGTTGGCCTTGGTGACCTCAGGGTCCCCTTGACAGAGCCAAGACTTATGTTCCCTGAGAAAAAGCTGCCAGTCTGTCAGCTGGTCTGACTCCAGTTTGTAGCAGGCTCACAGTCCTGGCCATCTTCCTCTTTTTCCCCCAGGGCCTTTATTAAGAAATCCCACTTAAAATACTAGACACAATCTGAACCACACATGGCCCAGGTACCACACTGCTTTCCACATAGTGCCGTAGCATGTGACTCTCACCAGGAGCTTGGGCCCTCCTCAAGTCAGCCCTCAGCTCACACTGTACTGGCCCTAGTACTTTTTTTTTTTTTTTGAGACAAGGTTTCTCTGTGTAACCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGACCTTGAACTCAGAAATCCACCTGCCTCCGCCTCCCAAGTGCTGGGATTAAAGGCATGCGCCATCACTGCCCAGCTGTTGGCCCTATGCTTAACGCAAGTATTATTTTGTTTTGCAACATCTGATGTTTCTGTGGGACTTTCTCATTTGTATCTTTGAGGTCTTCCTTACTTAAAAAAAAAAAAATGTTGCAGGCCGTGGTGGCATAGGCCTTAATCCCAGCATAGAAGCAGGTGGATTTCTGTGAGTCCAATCCAGAGTGAGTTCCAGGATAGTCAAAGCTGTGTGGAGCGATCCTGTTTCAAAAAAAAAAAAGTAAATAATCTAAAAACTTCCATATTTACTTGTAGGGGGGGAAACGGGGGAGGTCACAGTGCTCACGTGGAGGCCAGAGCCCCTCCCACTCTGCTGTGGGTCCTAAGGCTCACACTCACACTGGCACCTTCACCAAGGAAGCCATCTTGCTGGCCCTCAGTGCGTTTGACTCATCACCTAAGCATCTCCTAGCATTAATCCTGTAGGAATTCCTTTCTCTGTTAGCATCCAAGGCTGCTGTAAAAAAAGTCACCGTGAACTGAGCCAGCCAAAGCTCTTCTCTCACAGATCAGGGGTCTAAAGTCCAAGATGAGCAAGGCCATGTCAGTTCTGAAAGCTGTCACCTTCAGTCTGTCCCTCTTTACATGGCTAGCTTCCTTCTGTATGTCTCTAATGTGATAAAGTCACCAATTGCTGGATTAAGAGATGACATTAATCAAGTATGCCCTCATCTGAATTGACATCTGCCAGGACACTATTTCTCAGATTCTAGAGAGAAATAATTCGCCACTATTCGAACCCAGTGTACTTACTGCTCTCCTTACGGCCACCATCTTGATCTCGTGTGCTCACTGTCTTTCTGGTGTGTCTGTCTTCACCCTTTTATCTGCCCCAACCACTTCCTCATGCCAG
Seq C2 exon
GACAACAGCCGCCGAGTAGATAACGTGCTGAAGCTATGGATCATAGAGGCTCGAGAGCTGCCCCCCAAGAAGAGATATTACTGTGAGCTGTGCCTGGACGACATGCTGTATGCACGAACCACCTCCAAGCCCCGCTCGGCTTCAGGAGACACCGTCTTTTGGGGCGAGCACTTTGAGTTTAACAACCTGCCTGCCGTCCGGGCCCTTCGGCTGCATCTGTACCGTGACTCAGACAAAAAGCGGAAGAAGGACAAGGCTGGCTACGTTGGCCTGGTGACTGTTCCAGTGGCCACCCTAGCTGGGCGCCACTTCACAGAGCAGTGGTACCCCGTGACCTTGCCGACAGGCAGTGGGGGCTCTGGGGGCATGGGCTCGGGGGGAGGAGGAGGGTCAGGGGGTGGCTCAGGGGGCAAAGGGAAAGGAGGTTGTCCTGCTGTGAGACTGAAAGCCCGTTACCAGACGATGAGCATCCTGCCCATGGAGCTGTATAAGGAGTTTGCAGAGTATGTGACCAACCATTACCGGATGCTATGTGCAGTGCTGGAGCCTGCCCTGAATGTCAAAGGCAAGGAAGAGGTGGCCAGTGCACTGGTTCACATCCTGCAGAGCACAGGCAAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067629:ENSMUST00000194598:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.116
Domain overlap (PFAM):
C1:
PF0016924=PH=PD(26.6=87.9)
A:
NA
C2:
PF0016825=C2=WD(100=38.9)
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:
GTCTGCAGCTGAAAGGGACAA
R:
AACAGTCACCAGGCCAACGTA
Band lengths:
343-1954
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