MmuINT1032592 @ mm10
Intron Retention
Gene
ENSMUSG00000067629 | Syngap1
Description
synaptic Ras GTPase activating protein 1 homolog (rat) [Source:MGI Symbol;Acc:MGI:3039785]
Coordinates
chr17:26966883-26972434:+
Coord C1 exon
chr17:26966883-26966973
Coord A exon
chr17:26966974-26970498
Coord C2 exon
chr17:26970499-26972434
Length
3525 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAA
5' ss Score
1.62
3' ss Seq
TCCTCTTTGGTGTCTTGCAGGAG
3' ss Score
11.25
Exon sequences
Seq C1 exon
GCTGATGCTGGTGGAGGAGGAGCTGCGTCGGGACCACCCCGCCATGGCTGAGCCGCTGCCTGAGCCCAAGAAGAGGCTGCTCGACGCTCAG
Seq A exon
GTGGAAATTACAATGTCATTTATCTTCTCCGTGTCCCATCCCCATCCATCCCACCGTCTCTGTGCACTCACCGCACCAGCCGCGCCGCCCTGGCCCCATCACCGTCTGTCTGTCTCCTGTTGTCCTGTCTGTCTATTCATCTGCATCCCGTTGTCTGTGCCTCCGTCACTCCTGGCAGAGCCAGCCTTACTCCTGTGCCTTCCTGTCCTGTCTTCCCACTCTTGCCTGCATCTCAGGACCGCCTGCCACCAGAGCCTCAGCCTCTCAGCTCCCCTGCCTCCTCCCAGCCCACTCCTGTCTGTTCCTTCAGCTCTTCTTAGCCAGAAGGCTGAAGGTTCTCCTGGATAGAACGGAGCATACTGTAATCTGAGCTGTCATTTATCTAGCCCTGGGTACCCTAGAGACTCAAGGTTCTCTTGACTCTTGACTCTTCAGATCCAAAAGGCCTCTCCTGGAGACCCCTTTCCATAGTTGAAGTTCAACTTCCCTTTGACCTGTGGTGTTTCCCGAGGCTACTGTCTAACTCCTTGTGGCCACCCTCTCTGCTCCTCAGCCAGCTTCCAGGCCTTTCTGCACCCTGGCCCCTGCTTCCCTCAGATCCTGCTCTTTCCTATCCATACTCCTCCTCCCTTTGCTCTAACCACCAGGCATCCCTGCCACCACCACCAAGCTTCCTGACCCCATGACCCCACTCTCTCCCCCTGCAGCTCCTCATCAGGTAATTCTCCTGGTTCCGCTTTGACCACGGGCGGAGGACACTGGGGGAGGTGACTCCGGACCACTGCAGGTTGGTGGTGAAGCCCACCCCCTCCAACTCTCTGGAGCCTCTCCCCTCTCACTGCTGTGCACCACACCCAGAGACCCTCCACAGACCCCTCCCTCCCGACACCTCCTGCACAGACCCCTTCCCAAGGTACAACCAGAGCTCACCTGCTGACACCCCACACCTACCCTTTGATGCCTAGTAGTACCAAATTGGACCCTTAGAAAGACCAAGCAGAGTTACAGGCTTCCCAGTTCTCTCCAGACTGGCCCACCAGCCACCTCCTGGCACCACCCTCCTTTCCTCTACCTATCCAGTGTCTGTCTGTCACCCCCCATTTCACCAGAGCGTCCTTGGGAGCTGGGATGTTGGAGTGGGTGGGACAGGGTGGAGGGATACTGCGCTGGGGCCAGGCTAGAGAGCTGTGCTGACTCCAGCAGGTAGGTCAGGTTCCTGCTTCCTCTCCTGATCCCTCACCCCCTCCTGCTGTGGCCTTCTTTGCTCCTTCTCCTTTGCACCTGTGAGGCAGAAGGAATCTGAGGCCTCCTTAGTTCTGCTGGGCGGAAGCCCTGGAAGAGCTGCTGTTGAGATGTCCTGGCAGTGACAGAGCAGGCAGCACAGGCGAGCACAGGTCCTGGGCAGATTTGAGGCCGGACTGTGAGTCACAAGTGAGGGAAAACTGCTCCCTAGAATGTATTCAGGGGCTCAGTCGCCAGATTTAGTACCAGGCAGGGACACCAGGAACAGCATGTTAAATAGCCTCTTCTGGCAGAGCCCAAGTTGCTGTTGGTAATGCCACTCATCTCTCCCACTGCCGCCCAGGAGCCTTTCAGGACACATATCCTACCTAAAAGCCAGTGAATAGGGAGCTGTCGGGTCCACCTGTCCCGAGGCACGTTTCTGTGGGAAGGATCTGTGGTGGGCAGTGGCTCCACAGTGTAATTTTTACTCTCTGCCTGCCCGGCCTCTGTCACAGTTGTCAGTGATCTGTAAATAAATGCTGAGAGACACCAAGGAGCCTCACCATTTAAAGAGGACTCCTGCAGTGAATTCTTTTGTAAAATGAATAATGGTACCCTAATTTATCCAGTTTCTAAATTTGGGTTCATGAGGGCGTAGGGGGCATGCCCATGTGTCGTTATGAGCAGACATGCAGAGTGGAGACGATCTGGGGTTCCTTCCCTGCTCTCCTGCTGTGTGTGCTCAGGGTCTTCCACGACTGACTGCCTGGGACATACCCTGAGCCCAGAGGGTAGCTTGTCTAAGGTTATATTTGGGGTGGCCTTGTAACAACAGGTGAGTCTTTGATTCTGATACGGAGGTGGGGGAAGCTGATCTCGGGAGGCTGCATTTTTTTTGTGTGTCCTTTGGAGATAGGGTCAGATATAACTACATGCTGCCCTACCTAAATGTCTTGTAGCTTAGACAGTAATTTGGTTATTTGTTCCAAACTATTTGTAGGCTTTGATCTCACTGCAGCCCAGCTGCTACTTAAACCTAATAGAATTCATTTTAAGTTGGATTTTAAAGGCCAAGTACGTGTCCAACATTGTGGGGCCACACGGCCCCCTCTTCCAGCACAGACACAGAAGGCTGCGTTGAGAGGAGGAGCCATGAAGTGGGTAAAAGAGCCATAGAAGCTTCTGAAAATAGGCCCAAGAGTGGCCTCTAGGGTCTGCTACTCAAGCTGGAAACCTGGGGAGGGGAACCAAGGCAGAAGAAGGATGGAGGGTTGGGAGGAAGGGACAGCCAGTCTGGGAATTCACTCTGGGCACAGTGAATGGCTTTAAACCAGTGGTTCTCAACCTGTGGGTCATGCGCCCTTTGGGGTCTAACAAGCCCTTTACAGGAGTTCCCACATCCGATATGTACATTATGATTCATAATGGTAGCAAAAGTACAGTACTGAAGCAGCGACAAAATAATTGGATGGTTGGGGTGACCACATGAGGAACTCTATTAAAGGGCTGCAGCATTAGGAAGGCAAGGGCCACTGCTCTAATATTGGGAGTCTTCCTACAAGATGTCGCTCCACATCACCTCCCAAATCCCTTCCTGTTTCCACTACAGTCAAACCTAGTTTGGGATGTTATATTTGAAAGGTCCACTCTGATAGCTGACAAAACTGAATGACAACGTCTATTTAGGGAAATGCCTGTCTTTCAAACACAGTAAGTAGAACTCTGTGCACAAGGCTTCCTGCCACACAGGCCCTCAGGGAGCACACATACAGAATGAAGTCTGTTTGCTGGCATAGGTTAAGTCCCCTCCTACAGACATGTTTTCCACCAATTTGTTTAGTACAGTCTTTTTTTTTCACAGATAAAGGAAAACTCAAGTCCTGGTTTTGTTCAAATTATTAACAAACTTCCAGATCTGTAGGGGTTTGCACTAATGAGGTTTTACTGTACTGCCTCCTCTGTTTCCTCAGTGCGTTCTGGGAAGTTCCTGCCTGGGGTGGAGGGTGCTGGGAGGGGGCTCCATGGAAGTGGGGCTGAGGGGGGGGTAACAGTTCCTGAAGTGGGCATTATATTGGAGGGAAGGTGAGAGCTAGCAGGTTTTGAGCTGGTTTTCTGGTGTAAGTCTGGTTCAAAGGCTCCTGGTAGGAGTTGGGGTGAGGTTTCCTGGAGGTGAGAAACAAACAGGAGAAGGGTGGACATGGCTGTGGCTGGGCTGGGTTTGGGTGAGCACAGCTTGGGGCCACATCCTGGCCCCGCGAAGCGTCTCAATAAGTCCGCGCTCTCCTCTTTGGTGTCTTGCAG
Seq C2 exon
GAGAGGCAGCTTCCCCCCTTGGGTCCAACAAACCCGCGTGTGACGCTGGCCCCACCTTGGAACGGCCTGGCCCCCCCAGCCCCACCCCCCCCACCCCGGCTGCAGATCACAGAGAACGGCGAGTTCCGGAACACCGCAGACCACTAGCCCACCCAGCATCACAGACCTCCTTCCCTGTGCACCCTACCCCAGCCCACCCAGCGTCACAGACCTCCTTCCTTGTGCACCCCACCCTGGAACATCACCAACCACCAGGACTGGACGTCGCCAAGGGACAGCGGGATTGTCTCCCTTAATGCCTCCTTGGGGCACCCATCTGCCGACCCCACTACTCCATTCTAGGAGGGAGAGTGGGACCCTCAGCTGCCCTCTTTCACCCCAGTACACCACCTACCCCACACAGACCCCTTCACTCTGGGGTGCTATCCCTGTCCTCTGCCTCATAGTTCCCCTGAGCACTGGGGGGACAGACCCTCACCCCCACACTGGGGGTGTGGCACCTCCAAACTTTCAACTTCAGGGTGATTTTTTAGCAGTAACCAGAGCTGACAATCTATAACTCCCCTCTACCACCCCATTTTGGCCTCCCCTGCCCCCCCTTGTTATGGGGAGGGGACCCCGGGTGAGGGGGCCCTATTACCCCTTGATTTCTCAGGAGCGTCTGGGGGGGCTCAGCACGCACAAACTCCTTCTCCTCTTTCCACTCTTACATTAACTCTCCCCACCCAGAACCCAGATGGGGTGGAGGGGGCCACCGGGGCAGGGAGGGGGCGGCAAGGGGGGAATGGGAGTTGCCTCCCCTTCTTCCCACACCTGATCTGCTCTTGGCTGGTCCCAGAGCGGGGTGAGGGGGCTTATGCCCCCCCCTCCCCCAGTGTGTTGGGTGGGGTGGAATTGAGGTTTGGATGAGGGGGTTAGGGTATAGGAGGCCATGTGTGTTGGGTTGTGGAGGGACAGACTAGCTGATCTGCCCTACCCTGACATGCAGCCAGCCCTCTACCCCTTCCCTCTCTTGTCTCTACTCCCATGGGGAGGGGGGAACTTACTCTAGGAAAAGCCATGTCTCTCTCCCCCAGGATGGGGGGACCTGTGTTGGAGGATGGGTGTTTGGGGGCCCCCTTACATGACTCTGTCCCCTGGGGGAGGTAGGACAGGGCTGGGCTTCCCTCTCACCCTCACCCTCACCCAGTCTCCCTCCCTCCCGCCAGCTCCATGCTTTTTCGGTGTTTTTCTGTACATAGCTCTCTGGCGGTATAGGGGAGGTAGGATGGATGGGGTTTGGGGTGGGTAGGCCATGGAAGGGGAGAAACCCCTCCCGGGTACCCCCTCTTCTCTGACTGCTGCCCCCTACCCAGCCTTGTCTCTTCACTCCTTGCGTTTGGTATTGAGAATTCTTCCCAGACTCCAGACTCGATCTTTCTTTTGTATGGACAGCTCTCCTTCGGTCTAACCCTCTACATACACCCACCCAGCCGGGGCCAAATTTATACTTATATAAAAGTTGTAAATATGTGAAATTTTATCCCATGCCCTTTCCTCTGCTTTCCCCATCAGGCCTTACCCTTGAACCTCCTCCCTCCTCTTTGGCTGTTGTAATTATCTGGGGTTTGTACTGTACATAATTGGGGAGGGGGGCTGGGAGGCGACCCCTCTGTACAGAGCTTCCTGGCTCCCTAGCCCCACCCCTCACTTCCCTCCCCACCCACCACCTTAAGAGTAGGGAGAAGATCTTCTTACTCTTTTTTTTTTTTTTTTTTTTTGCTGTTTGTTTACTCGTTCTCCTTCCTGCCCCTGCTCCCAGACTCTTGGTCCCCCACCACTGCCCCCCCTTTTCTCCCACTCCCAGGCCCATTTCCTTTTTTTTTTTTTCTTTTCTTTTCTGGAGTGTGTGGTGAAACAGAAAAATCATGTTTAATAAACGGAGATTGTTCTTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067629:ENSMUST00000194598:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.654 A=NA C2=0.940
Domain overlap (PFAM):
C1:
PF120043=DUF3498=FE(24.6=100)
A:
NA
C2:
PF120043=DUF3498=PD(2.9=34.7)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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