DreINT0020551 @ danRer10
Intron Retention
Gene
ENSDARG00000069765 | SYNGAP1 (2 of 2)
Description
synaptic Ras GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:11497]
Coordinates
chr16:45676971-45681810:+
Coord C1 exon
chr16:45676971-45677483
Coord A exon
chr16:45677484-45681369
Coord C2 exon
chr16:45681370-45681810
Length
3886 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
AGCATGTGTCTTGTGACTAGGAG
3' ss Score
5.59
Exon sequences
Seq C1 exon
GCCTCGATTGCTGGCCTCGGCAGCTACGGTGGGCTCGCAGGCTTGGGTGGAGGCCTCGGAGGTCAGCTGCGAGCCGGAGGACGTATGTCGGCCGGATCTGGCGGTTCCAGTATGTCCGGGGGTCTGAGGTTGAGCCAGCTGAGCCAGATGGGAACCACTACCGACTCCCTGTCCCAGCAGCAGCAGCAGCAGGCCGCCGCCCTCCGCTTTCCCCTGTCCTTCCAGAACCCTCTGTTCCACCTCGCTGCTGACGGACCGCAGCTTCACCACCAGCACAGTCGAGCTCAGCCTCCTCCTCCGCTCCTGCTGGCCCCAGAGCCGGACGGTTCTCACCCTACTTATATCCCACAGTTTGCACATGGTGGTTTCTCCCGAAGTGAGGACCTCTCCACCCTCAGACCCGGCCCTCATCTGGGCCAGCCAAGTATTATTCATTCTCACAGCTACAGCGACGACTACAGCCGTCATAACCAGAGCGACTACGGGCGACGACAGATCTCCATGCACATGCAG
Seq A exon
GTATTTGCTTGTTTTAAATTGCTTTGACTTGAGGCAAGGATGTCAAATTCTGTTCCTGGACGGCCGCTGCCTCTACACAGTGTAGTTCCAACCCTGCTTCAACACACTCACCTGTAGGTTTTAAACAAGCCTAATGCTGATGATACACAGGGCAGCTTATTTAGCAATGATGCTGGGCAACTTTGGGAAATTATGCCATAAATGGGCAACCGGATGAGACACAGGGTAACTTATTACGGCAACAGGCTACAGAGACAATACTGCTGCATTGCTCTGCAAAATTGCCCGGCAGCATTGCCCAAAAGGATGAGCCGTGTATCATCAGCATAAAGGATTTAATTAGTTAGATCATGTGTGTTTAATTAGGGTTGGAACTAAACTGTTCTGAACTGCGGCCCCCCGGGAACTGAGTTTGACACCTGTGACTTAAGGTGTGGTCCCATTTACTGCAGCCTTTAATATCAGTCGCTTGTTCACCTCTTTAGGGTAGGGAAGTGAGGTTTACCCACACAGCTCCTACTACTCCATTACACTCACCTCCATAAATCTCACTCCATTCTGGGTCATAGTTTAAGTGAAGTAGTGTTTCCGGCATGGGAGTCAAGTGAACTAACAAGGTGCTAAAAAACCGTCTTTAGCATCAATTGCAAGTTCACCTCCTGACTCCATGATGTCAGGTTTACTACTAGTCCATTGCACACATCCACCTAAACGTTAGATGACATTCAGATGACAGCACTAAACCTTGGAACTAACTATGCAGGTGCACTAACAGGTCCACTGGTTTCAGACTTGATAGAGGCTCTCATTGCAGGAACTTTTTGTAATTCCTAGAACTATTGGCAGAAGTAGTCCACAAGAACTAGGAATGCCTGTGAGGGAACTTAATTAGTTCATACTTTGGTTTAGGGTCTAATCAGCAAATAGGAAGACCCTAGACATGAGATGGGATCAGCAGATAGGATATAACACTTATACAGCAAATAGTTGGTTAGCACTTGTTACGACCCTGGTCTAGGGTCAAGGATCTAACATAAAGTGGGGGCTCGTCCGGGATGTTGTTAAAAAAAAAAGACAAAGAAATGGATCCAACTCCAAGGGTTCATAAAAGTGATTTAATTTGTCCAGTGTTGTTTTATTTATTTATTTTTTCAGAGCCTGTGCAGATGAAATGAAAGAGGCAACACACTACCAGTGCTGATTAGACCCTATACTAGTAGTTCCTATATGCGGGATAGCCTCTAAACGGGTAGTTCCTAATTTCTGGTCAGACCCTACATTGATAAATAGGAACTACAAGTGTAGGGTCTACCCAAGAAATAGGAACAATAATTGTTGAGGTAGTTCATATTTGCTGGTTAGAGCTTACAGCATACAAAGCGAATAGTGACTACCAGTGTGTAGTCTAACCAGCAAATATGATCTAGTTTAGTATCCAGTATAACCAGTAAATAGTTCCTATATGCTGGTTAGACTTTACACTGATAAATAGGAACTACCATTGTAGAGTCTAACCAGCAAATAGAAACCAGTGTTTGTGGAATGTGCACTTGTATATCTGTTAGCATGGCATCAAAAGGTAAACCTAGCTCCAACCACGGCACCCTCCATCCTCCAGTGGTCAGTTTTATTCAATGCCACATTTGACAATAAGGTCGCTGACTTCCAGTCAGAGTAGCAACCGAGAAAATGGCCTGAAAAGAATTTAGTTCTACTACTATGTTCCTCTTACTAACTGGTGTGAAAGCCCCTAACGTGACTATTGAGGCCAGAGTAGTGAAGTTTACTAACACAGCTTTTGCTAGCTGTACTCCATTACATTTACCCCTCAATCCTCACTCCCATTTGAGTCATGGCACCAGTGTTAACCGTCTGGTTCTACTCACTAAGCATGGAAGACAGGTGCATTAAAGGATTAGTTCACTAGTTCACAGTTAGTTAATTACTCATCCTCATGTCATTCCAATCCCCTCGTCTTTAAAACACAAATTAAGACATTCTAGATGAAATGTGGGAGCTCCTTCATCAACCATGGTTCAGAAAAGGAACCAAAACATTGTCAAAACAGTCTATGTAACTTCAGTGGTTAAGCTGTAATTATACAAAGCCCTGTAAACACTTTTGTGTGATAAAAATACTGCAAAAAACTTTGTTCTGCAATGTCTTTTGTTTCAGATCAGGGTGCATGTTTACTACAGGCAATGCAATACTTGTGTGTTGCGCTGCTGACTCTAATGGCAATACATTTATTGACCTGTAGTTAATGCACCGGTGTATTTACAGTTGAACCACTGAAGACACATGGACTGTTTTGACCATGTGTTTGGTTTGTTTATTGGACTTTGAATGTCTAGGGACCTGATTTGTGTTCTGAAGATGAACAAAGGTCTTTTGGGATTGTAACAAACTGAGGGTGAGAAATTAATAACAGAAATGTACTTTATGGGTGAACCGAACCTTTAATAAGAACCAAAAAAACCACATCTTCTAGCATAAGATGCTAATGCGCCTCTTGAGGGGGAGGGGGGTTTTTCCTTTCACATCTCCTAATAGCAGATCTCTTTTCCATTCACATGAGGACGATAAAGTTCACACTTAGATTTTGCTCATGTTCACGTTGGTCATGCGAATTCACTGCTCTGAGCAACAGAAAAGCTGGTTGGTTTGAAAGTGTGTTCTGTGTGAGCTGTTCTTTATACAACACTATTGACAATGAACCATGGGCATTTTTTGCACTCAAAATATTGCTGTAATTTCACTGATGTGGTTGCACTGTTGAAACAAATGGTAGCATCATAATAAAAAGCCACAAAGTAGCTCTTGAAGACCTTTATATTGTATATAATCAAATGTAAAATTGGACACTCTAATGCTAAAGTTGGCATTAGAGTGGATTTTGGAGAAAAAAAAATGAAAAGAGATAGTTTACTCAAAAAATTTATAATAATTTACTCCACTTGTTCAAAACCTGTTTGAGTTTCACTGTTGTGTTGAACAAATGAGAAGATATTTTGAAAGTGAAAAGGAAAAAGGTAACCTAGGGCTGGACAATAATTTGATATTAATATATATCGCGATAGATTTTTTCAATAATGGTGATATGATTTTTAAACTTATTTCTGATATTTTAATATACATTTGCATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATCCACTAATAAAGCTCTAAATGTATTAAAACTTAATTTTTTTTTATTTTACCACGTTATAAAAAACAAACACTTGTTTGAGGACATAAAACACATTTTGTATTTGCAGTTTTCCCCGATGCGTTTATAAAAAGGTGCTATATATATATATATCCTCACTGCTGCTTAACCTCCCGGGCGATTAGCCCGGTTCAGCCCGATAAAAGCCCTGGCTCGCACTGGCCTGACAGTGGAAATGCGGCTATTGACTTCCATAGTATATCGTTTTTTCTACTATGAATGTCAATGGTTACAGGTTTTCAATATTCTTCTTTATAATATTTTCATTTGTGTTCAACAACTCATAAAGCTTTGGAACTTCATGAAATTGAATAAATGGTCAGTAAATTCGTGTTTATGAGTGAACTATCCCTTTAAATAAGGTTTGAAGTTAACAGTTTTTGTGTTCGTTACATTGCATTTTATTGCTAAATTCAGGTTGGCCTACAAAAATATGTATCGTTTATACTGTAATTTGAAATGTGACAATACTCCTGGTACTGTTTTACAGGAAGGATTCATTGTTTGCTTAGTTTTCTTTTCAAGCCAATACCTAATGCTGACAAATGAGCCAAGCTGATTTATATATGAGTGTCAGAAATGGTGGATGTTATTTAAGCATGTGTCTTGTGACTAG
Seq C2 exon
GAGCAGCAGCAGATGGCAGGCATGGCATCGCAGACTGGCACATCTCATTCATCTCTCGCCACTCCTCCTTCCACTGTTCAACCTGTTCGTCAAAGCTCCATGGCTCCTCCCACGCAGCGCATGAAATCACAACCCTCACATCAGCTTTCTGTGAGCTCTGCCGCTGGTGCCCCTGCGTCCAAAACCAGGCCGCAGAGCGGAAACCTGCTCCAGTCCCCGGAGTCTGGCTTCGGGGGCCGGCAGCAGGGCCCTCGGCAGCAGCTGTCTGTCAAAGACAGCACCCCACCCGGCCTGCCGCATCAACAGAGCTCCACCAGGGAGAGTCAGGGATCCCAGGGCTCTCAGGGTGGAACGCCGCAGTCCACGCAGCAGTCCAAATCACATCAGGAACGGCAGCAGGTCCAGCAACAGCATCTGCTCAAGCCTACCATGAGCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069765:ENSDART00000143867:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.883 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF120043=DUF3498=FE(28.1=100)
A:
NA
C2:
PF120043=DUF3498=FE(24.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]