MmuINT1032583 @ mm10
Intron Retention
Gene
ENSMUSG00000067629 | Syngap1
Description
synaptic Ras GTPase activating protein 1 homolog (rat) [Source:MGI Symbol;Acc:MGI:3039785]
Coordinates
chr17:26941253-26944754:+
Coord C1 exon
chr17:26941253-26941518
Coord A exon
chr17:26941519-26944632
Coord C2 exon
chr17:26944633-26944754
Length
3114 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGG
5' ss Score
9.4
3' ss Seq
TGTGTGTCTCTGTCCCCCAGATG
3' ss Score
12.37
Exon sequences
Seq C1 exon
TCTCTGCTGCCGCTGCTGCCGTTGGCTCTTATTCTCCTCCTCCTCCTCCTCTCTCCTCCTCTCTGCTCCTCTCCGCTCCTCTCTCCTCCTCTCTCCTCCTCCTCCTCCTCCTCCACCTCCTCCTTCTCCCCCTTTCTCTCCCCCTCTTTCTCTCTTCTTTTTCTCCCCCCGTCCCCCCGCCCCCTCCCCCTCAGGCCTGATGAGCAGGTCTCGAGCCTCCATCCATCGGGGGAGCATCCCCGCGATGTCCTATGCCCCCTTCAGAG
Seq A exon
GTACGGTGGTGGTAAGGGGAGGGGAGGGCCAAATGGGGGGGCAAGAGGGGGAGGGGCAGCGGGCGGGGGAGGGCCGGGGCCACCGAGGGGAAGGAGCGGCTGAAATGGAGGGAGAGGGGAGGGTCGGGAAGGCAGAGGTGGGAACAGTGGGAAAGGAGGGATTAGAGGCATAGGGGTAGGATAGAGGGGCTGGGACACGGGCCTTTTCAAGGGGGCTGAGGGGAAGATGATGGAGGGGAAAGCGCGTCAGAAAGGGATGAGAAGGGAGGACTGAGTTTGGGGAAAGGCTGCAGAAATGGTTTGGATTTGGGAGCAGAGTGAGGAAGAAATTACCAAGGAAGTAGAGGCATGGTCTTGGGAGAGGGTAGGGGGGAAATGAAAACACAGGCGGCATGAGAGACCAAGAAGGTGGGAAGGGAATTTGGTGAGGGGCTCAGGGTGGTAGGACTTAGGAAAAGAGAGGAGGATGGAGGGAGGGAAGGGGCCAGATGGAGAAAGAAGGTGGCAGTGGGGGGGTGTGGGGGGTCCAGATGGAGGGAAGAGAGGAGAGAGAAAAAGGATTGGGGGAGGGGACACCAGAGAAGGGGGAGGATCAAGTGGTTTTTTTTTTTTTGGTTTGGGGGGGGGGATGCAAGTAAGATTGAGGGGTGGGGACAAGGGCCAGATAAAAATCCTGAGGGTAACTGGCCCTCATTAGGACTCTGGAGAAGTGAGATGCAATCCCTGAGTCTCATTTGCTTTCTTAATCGCTTTGACCCCTTCCCCCACCCCACCTCTTCTTTCCAGTCCCCCTCCCTGCCTCTGCTGTCCATCACTTATATCTTTCCCCCCATATGGTGTCCGTTTCTTATATGAGTCCCCCTTCTGTTCTTCCCCTGTATTGGTCCCTATCTCATATCTCTTCTCTTTCCCTCCCTCTCTTCTAATAACTACCTTAATACACCACTGCTGCTCCTGGGCCCCGTGTCTCAGATCCCCTGACAGGTCTCTCTCACTCCCTCTGCCCCATGTTGGCTGAAACCTTCTGGTCCATTCCCTTGCCCTAGGCAAGCAACCACCATCTTTACCATCTTCCTTTTCTCTTAGGTTCACGCTGTTACTTGTCCCTCAGCTCACCCTCTGTTTCCTATCCCACTTCCCATCTTGTCACATGGTCTGTGCTTATTTCCTCTTATTCCCCAACCTGGTGATTCCTCTCTTCTTGTCCCCTCTGCTTCCTGGGGTGATAGAGATTGGGGGGGGGGGTTACCAAAACACAGGTTTTGATCGTTGGAACAGGGCTCTAAGGAATTCCCCCATCTTGGACCCTTGTGGAACTTCTCATTCCAGTAAAAATTTCCCATTTCCCTGTCCTCTGCCATGTTCCATTGCTTCCTAGGGTCATTAGTATTCTTAACTATAGAATCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTACCTAAGCTAAGATTCCCTGTGTCCCTTTCCTGTTCCCAGTAGAACAGTGTCCCTTGAGGTCTATCCTGCTTGCCCAGCTGCAGCCTAGAGCAGCTCCTCTGTTGTGTTTTGGTTATATGTATTAACAGATTTTTCCCCTGGATACACCATGCGTTGAGATGTACTAGGCCTCAAGTGTTTGTGATCTAAGTTATGGAAGGTTGTTGTTGCTATTGTTGTGCTGGGGCTTTGAATCCTAGTGGGGTTTTTTTTGTTGTTGTTGGTTTTTGAGTTTTTTGTTGTCATTATTGTTTTGGTTTTTTTCCCCGACCACTGAGCTATAATGACCAACCCTGTCAGTGACCTTTGATATTTAGAAAATATGAGTAGAGTTTCCAAGAAAGCATCGAGACAGTGAAATTTTGAAAGCATTGTGAGGTCTAGGCACAATTCCCAGGTGTTTATCTTTCTGTCTGACCTGCAATTTGGGTAAATTTGAGAATGGTGGCCATCATCAGTAAGGGGATGGAGTTTCCTAAAGTTACTCTAGGGCCTGGAATGAAGCTCAAAGGCCAGTTCTCCTGAAACATGCCCAAGTTAATTACCCTGCACAGGTGATAGCCCTGGACTTTTCTTCCTGTGAACATCCTCCAGTTGATCCCTTAAGCCTAGTTTTATCACTCCAATATCACCAATCTAACTCTTCTGACTCCCTGAAGGCCTTTCCTTCACTGTGTCCCCATAAATGGTATGTGGCAACGATGCTATCGAGACAGCAAAGATGGAGCACCTGAGTGTGCATAACTGTTGATCCCATTTTTTTTTTTCTGGAAATTTGTTTATTGTCAGATTTCATCTTGGGAAGTTCCTCTGACATGAGGTGTGGCTGTTCCACTCTTTCCTCCACTCTTTCTAAGTTCCTCAATGTGCCCAGTGACAGCCAGGTGCGGCTGTCAGCTTGTAGAGTTGGCTCCTCCCTATCTATGAAGATTGGGTGGGAAGAGGAGGGCTGACTCCGGAGCCTGCTGTGGACAGAGAGGCCAGACCAGTCTTTGGTCATCGGAGCAGATCCCTGATCCCTGCACAGCCAGATGCAAAGACGAGCTACCTTCCCCTTGGTAACGTCTCCAAAAGGGTGGCCAGGGTAGGAGTAGGGAATTAAGGGAAGAAGAGAGGGGAGGCCTCACGCCTCTCTGAACATATAAGACCCCCCCCCATTCCTTTCTTTCTTCTTAATTGTTTAGTTCTCAGAATCTCATGACTCAAATATGCTTCAGTGCACCATCTTCTTTTCCACAGCTGGGTACCTCATATTCTCCTAAATATGTGAGGCCGCATCCATTGTAAGCAGCTTATTAATGCCCTTCCTCTCTGTGTCTTTTGCCAGTTTCATAAATCTCTACCCCTCAACACTAGTGAACAGGCCGAGTTTTCCCCCTTCTACTGCCCCTAGTAAAGTCCCTCTCTGTCATGTGACTAATTCTCATCTTTGAAGCCACGCTCATCCCCTTCCTGGAACCTCCCATGATGCCACTCAGCATGAAGGACCATCCCCCGACCCAAGACCTCTCCAGGCGGGTGGTGCCCCTTTTCCCTCTCTGCAGACTCTCCTTCCCACTTTAGGTTTCTACACCCAGCGTATAGACCCTCCCTCACTGTCTGTGTGTCTCTGTCCCCCAG
Seq C2 exon
ATGTACGGGGACCCCCTATGCACCGAACCCAATACGTTCATTCCCCGTACGATCGTCCTGGCTGGAACCCTCGGTTCTGCATCATCTCGGGGAACCAGCTGCTCATGCTGGATGAGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067629:ENSMUST00000194598:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.421 A=NA C2=0.372
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0016924=PH=PU(14.9=80.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
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:
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