HsaINT0005588 @ hg19
Intron Retention
Gene
ENSG00000169692 | AGPAT2
Description
1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta) [Source:HGNC Symbol;Acc:325]
Coordinates
chr9:139571037-139571588:-
Coord C1 exon
chr9:139571413-139571588
Coord A exon
chr9:139571133-139571412
Coord C2 exon
chr9:139571037-139571132
Length
280 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
AGGCTCTCCTCTCCCTGCAGCTC
3' ss Score
9.9
Exon sequences
Seq C1 exon
GCCTCATGGAGGTCCTTCCGGAGCGCTGCGTGCAGATCGCCAAGCGGGAGCTGCTCTTCCTGGGGCCCGTGGGCCTCATCATGTACCTCGGGGGCGTCTTCTTCATCAACCGGCAGCGCTCTAGCACTGCCATGACAGTGATGGCCGACCTGGGCGAGCGCATGGTCAGGGAGAAC
Seq A exon
GTGAGTGTGCAGGGCCGGGCTCGGTGGGGTTGGGGTGGGGCCTGGGCGGGGCCAGGCAGGGGCCAGCTTGTGACTTGGTTTTGGCAGAAAAAACAAGACCCCCACATCATCCATGCTCCGCAGGTGGGGTCCCACGCCAGACCCCTACATCATCCATGCTCCGCAGATGGGGTCCCATGCCAGCTGCTTTGCGAAGTGGGGCTTCTTAGGAGGCGAGGCGGCGTGGCCTTTCTGGGGTGGCCTGGGCGTGAGGTCAGTCCAGGCTCTCCTCTCCCTGCAG
Seq C2 exon
CTCAAAGTGTGGATCTATCCCGAGGGTACTCGCAACGACAATGGGGACCTGCTGCCTTTTAAGAAGGGCGCCTTCTACCTGGCAGTCCAGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169692-AGPAT2:NM_006412:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0155316=Acyltransferase=FE(45.0=100)
A:
NA
C2:
PF0155316=Acyltransferase=FE(24.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCATGGAGGTCCTTCCGGAG
R:
TGGACTGCCAGGTAGAAGG
Band lengths:
263-543
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)