RnoINT0146737 @ rn6
Intron Retention
Gene
ENSRNOG00000000483 | Syngap1
Description
synaptic Ras GTPase activating protein 1 [Source:RGD Symbol;Acc:621090]
Coordinates
chr20:5560152-5561068:+
Coord C1 exon
chr20:5560152-5560242
Coord A exon
chr20:5560243-5560988
Coord C2 exon
chr20:5560989-5561068
Length
746 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAA
5' ss Score
1.62
3' ss Seq
CCCACTCTCTCCCCCTGCAGCTC
3' ss Score
12.54
Exon sequences
Seq C1 exon
GCTGATGCTGGTGGAGGAGGAGCTGCGCCGGGACCACCCCGCCATGGCTGAGCCGCTGCCTGAACCCAAGAAGAGGCTGCTCGACGCTCAG
Seq A exon
GTGGAAATTACAATGTCATTTATGTTCTCCGTGTGCCATCCCCATCCATCCCACCGTCTCTGTGCACTCACCGCACCAGCTGTGCCGCCCTGGCCCCACCCCCGTCCGTCTGTCCGTCTGTCTCCCGTTGTCCTCAGTTTGTCTATTCATCTGCATCCCGTTGTCTGTGCCTCTCTCACTCCGTAGTGCCAGCCTTCCTCCTGTGCCTTCCGGTCCTCTCCCACTCCTGCCTGCGTCTCAGGGCTGCCACACCACCTGACCTCAGCCTCTCAGCCCTGCCTCCTCCTAGCCCAGTCCTGTCTGCTCCCTCAGCTCTCCTTACTCAGGAAGGCTGATGGCTCTACTGGATAGAAGGGAGCATAGTATAACCTGAGCTGTAATTTCTCCGGCCTGGGTACCCTAGAGACTCAAAGCTCCCTTGACTTCCATTCTGACTCCTTGGTGGAGCCTATGAAGCCTCTTGCCCCTGGTTCTTCAGATGCTAAAGGCCTCTCCCAGAGACCCCTTTCCTTAGTTGAAGTTCAACCTTCCTTTGGCCTCTGGTGTTTTCCTGAAGCTACTAACTCCTGTCACCACCCTCTCTGCTCCTCAGACAGCTTCCAGGCCTTTCTGCACCCTGGCCCCCGCTTCCCTCAGATCCTGCTCTCTCCTGTCCATATTCCTCCTCCCTCTGCTCTGACCACCAGGCCTCCCTGCCACCACCACCAAGCTTCCTGACCCCATGACCCCACTCTCTCCCCCTGCAG
Seq C2 exon
CTCCTCATCAGGTAATTCTCCTGGTTCCGCTTTGACCACGGGCGGAGGACACTGGGGGAGGTGACTCCGGACCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000483:ENSRNOT00000000572:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.505 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120043=DUF3498=FE(5.2=100)
A:
NA
C2:
PF120043=DUF3498=PD(0.2=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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]