RnoINT0146738 @ rn6
Intron Retention
Gene
ENSRNOG00000000483 | Syngap1
Description
synaptic Ras GTPase activating protein 1 [Source:RGD Symbol;Acc:621090]
Coordinates
chr20:5560989-5564437:+
Coord C1 exon
chr20:5560989-5561068
Coord A exon
chr20:5561069-5563817
Coord C2 exon
chr20:5563818-5564437
Length
2749 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TCCTCTTTGGTGTCTTGCAGGAG
3' ss Score
11.25
Exon sequences
Seq C1 exon
CTCCTCATCAGGTAATTCTCCTGGTTCCGCTTTGACCACGGGCGGAGGACACTGGGGGAGGTGACTCCGGACCACTGCAG
Seq A exon
GTTGGTGGTGAAGCCCACCCCCTCCAACTCTCTGGAGCCTCTGCCCTCTCACTGCTACGCACCACACCCAGAGACCCTCCACAGGCCCCTCCCTCCTGACACCTCCTGCACAGACCCCCTTCCCAAGGTACAAGCAGGCTCACCTGCTGGCACCCCCACACCTACCCTTCCATGCTTAGCAGTACCAACTGAACCCTCAGAAAGACCAACACAGTTAGAGGTTCCCCAGTTCTCTCCAGACCGGCCCCACAGCCACCTCCTGCCACCACCCGCCTTTCCTCTACCTATCCAGTGTCTGTCTGTCACCCCCCATTTCACCAGAGCGTCCTTGGGAGCTGGGATGTTGGAGTGGGTGGGACAGGGTGGAGGGATATTGGGCTGGGGCCAGGTTGGAGGGCTGTGCTGACTGCAGCAGGTAGGTTGGGGTTCCCGGTTCCTTTCCTAATCCCTCACCCCCTCCTGCTGTCGCCTCCTTGCTCCTTTTCCTTTGCCCTTGTGAGGCAGAAGGAACCTGAGGCCTCCTTACTTCTCCTGGGTGAAGTTGGGAATGGAAGGAGCCCTGGAGAAAACGCTGTAGAGACGGCGTGGCAGTAAACAGAGCAGGTAGCACATGACAAGCGAGAGTCTGGGGCAGATGTGAGGCTAGACTGAGTTTCATGTGGCCTGTAAGTTGGAAGTGAGGAGAAACAGGCTCTCTAGAATGTATTCAGGAGCTCAGTAGCCATATTTGGTACCAGGCAGGGGCACCAGGAACAGATGTTAAATAGCCTCTTCCGACAGCCAGCGCCCAAGCTCCTGTGGCTAATGCCGTGCATCCCTCCCCTCTGCCCAGGAGCCTGTCAGGACACAGAATCCAGTCCAAAGCCAGTGAGCGGGAGGCTGTCAGGGTGCCTGTCCTGAGACACATTTCTGTGGGAGGAACTGTGGTGGACAGGGACTCCTCAACACCTTTTCTCTCTGCCTGCCCGGCCTCTGTCAAAGCTGTCAGTGATCTGTAAACAAGTGCTGAGAGACACCAAGGAACCTCGCCATTTAGAGGACTCCTGCAGTGAATTCTTTTGTAAAATGAGTAATGGCACCCTAATTTACCCAGTTTCTAAATTTGGGTTCGTGAGGGCGTAGGGGCATGCCCATGTCGTCATGAGCAGACAAGCAGAGTGGAGGCCATCTGAGGGTTCCTTCCCCTGCTCTCCTGCTGCGTGCACTCAGGGTATCCCACTGCCTGCCTGTGAGATACCCAGAGGGCCAAGGGGGCAGCTGTTTAAGGTTATATTTTGGGTGGCATTGTAACAACAGGTGAGTCTTTGATTCTGACATGGGGCGGGGAGCTGATCTTGGAAACCTTCACTTTTTTGTGTCCTTTGGAGAAAAGGTCAGATATAGATAACTTCACGCTGCCCGACCTAAATGTGGCTTAGACAGCCACATCTGTACTTTGGACATTTGTTCCTATTTGTAGGCCTTGATCCCCTGCAGCCCAGCTACTATGTAAAGCTAGTAGCATTCATTTTAAACACTAAGTATGTGTCTAGCACTGAGGAGCCACACGGCCCCTCTCCCAGCACAGGCACAGAAGGCTGCGCTGTGGGTAAAAGAGCTGTAGAAGCTTCTGAAAATAGGTCCAGGAGTAGCCTAGGGTCTGCTACTCAAGCTGGAAACCTGGGGAGGTGAGCTGAGACAAGAGAAGGATGGGGTGGGGCGGGGAGGGGCAGGGAAGGATGGGAAGTCAGTCAGTCCACGAGTGCAGTCTGGGCACAGTGAATGCCTGGTGGGTCCTGCGCCCTTTGGGATATAACAAGCCTTTCACAGGGCCCCATATCCGATATGTACAAGTCATAACCGCAGCAAAATTACAGTTATGAAGTAGTAACAGAATCATTCGCCGGTTGTGATGACCCCATGAGGAATTGTAGCAAAGGGCTGCAGCATTAGGAAGGCTGAGAACCACTGCTCTAAACCTGTGAGTCATTCCTACCAAGTGTGCGTGCGAGGGGTCTTCATACAAGATGTCCCTCCACATCACTTCCCCATCCCCACCCTGTCTGCAGTACAGCGAAGCCTAGTTTGGGATGTTAGACTTGAAAGGTCCACTCTGATAGCTGACAGAACTGAATGACTATGTCTGTTTAGTGAAATGCTTGTCTTCAAAACACAGTAAGTAGAACTCTGAACAAGGCCTCCTTCCACACAGGCCCTCAGGGAGCACAGCCTAATGAATGAAGTCTGTCTGCTGGTGTAGGTTAAGTCCCCCTCCCACAGACATATTTCCACCAATTTGTTTAGCACACTTTTTTTTTTCCCTCACAGATAAAGGAGAACTCAAGGCCTGCTTTTGTTCAAATTATTAACAAACTTGCAGATCTGTAGGGGTTTGCACTAATGAGGTTTTGCCATACTGCCTCCTCTGGTTCCTCAGTGCGCTCTGGAATTCCTGCCTAGGTGGAGGCTGCTGGGAGGGGGCTCCATGGAAGCGGGGCTGGGACCGGGTGGGTTACATACATAGACCCTGAAGTGGGCGTATACTGGAGGGAAGGTGAGAGCTAGCTGGTTTTGAGCTGGTTTTCTGGTGTGTAGCTCGAAGGCTCCTGGTAGGAGTCGGGGTGGATTCCTGGAGGTGAGAATCAAACAGGAGTGGGGTGGACACGGCTGTGGAGTGGGCTGGGTGCAGGTAAGCACAGCTTGGGGCTAGCATCCTGGCCCCCGCGAAGCGTCTCAATAAGTCCGCGCTCTCCTCTTTGGTGTCTTGCAG
Seq C2 exon
GAGAGGCAGCTTCCCCCCTTGGGTCCAACAAACCCGCGTGTGACGCTGGCCCCACCTTGGAACGGCCTGGCCCCCCCAGCCCCACCCCCCCCACCCCGGCTGCAGATCACAGAGAACGGCGAGTTCCGGAACACCGCAGACCACTAGCCCACCCAGCATCACAGACCTCCTTCCCTGTGCACCCTACCCCGGCCCACCCAGCGTCACAGACCTCCTTCCCAGTGCACCCGACCCTGGAACATCACCAACCACCAGGACTGGACGTCACCAAGGGACAGCGGGATTGTCTCCCTTAACGCCTCCTTGGGGCACCCATCTGTCAACCCCACTGCTCCATTCCAGGAGGGAGAGTGGGACCCTCAGCTGCCCTCTCACCCCAGGACACCACCTACCCCACACAGACCCCTTCACTCTGGGGTGCTATCCCCATCCTCTGCCTCACAGTTCCCCTGAGCACTGGGGGACAGACCCTCACCCCCACACTGGGGGTGTGGCACCTCCAAACTTTCAACTTCAGGGTGATTTTTTTAGCAGTAACCAGAGCTGACAATCTATAACCCCCCTCTACCACCCCATTTTGGCCTCCCCTGCCCCCCTTGTTATGGGGAGGGGACCCCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000483:ENSRNOT00000000572:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF120043=DUF3498=PD(0.2=20.0)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
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]