HsaINT0005590 @ hg19
Intron Retention
Gene
ENSG00000169692 | AGPAT2
Description
1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta) [Source:HGNC Symbol;Acc:325]
Coordinates
chr9:139567595-139569259:-
Coord C1 exon
chr9:139569187-139569259
Coord A exon
chr9:139568380-139569186
Coord C2 exon
chr9:139567595-139568379
Length
807 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
GTCTGTTGCTTCCCCCACAGGAA
3' ss Score
10.65
Exon sequences
Seq C1 exon
GTGCCCATCGTCCCCGTGGTGTACTCTTCCTTCTCCTCCTTCTACAACACCAAGAAGAAGTTCTTCACTTCAG
Seq A exon
GTACCCCCACATGTGTGCACCCGGGGTGTAGGCCCCGCCTGACCCTACAGTCACGGAGCCCCGGGCCCCTCATCGTTCCCATTTCCGGGTGGCACCCGTGGCGTGGCCACACGGTGACCATGTGGCGAATGAGTGACTCAGGCTGGAGTCCCAGCTGTGGGCTTCATGGCCTCATGGCCCTGTGAGATGGGTGGTGCTGGGCCCATTTTTCAGATGAGAAAACTGAGGCTCCAAGAGACTTCACACGGATGGACCCCAGCTGTGCACACAGCTTGGGGGCCTGGAGGGCGGCCTCTGAGCCCATGTGTCCAGGCTGATGCCCGCATAGGGTAGATGGAACCCAGGCAGCCCAGGGGCACAGGCTGCGGGGCTCATGACCTCTTGCCCCTTCCAGCCAGTTCCCAGAACGTGGGCACCTGGTGCCCAGGCAGGACAGTGGGGTCAAAGTTGGAGAGCAGTGGGGGAACCCAGCTCCATCTCTCCCACAGCCCCTCGCCCCGTATGGAGGGCAGAGGCCAGGCAGTGAGGTAGGGGCTGATCAGGAAGTGGGGCTTTCTGGGGGCAGTAACAGGGGAGCGCAGACTTGTCGAAAATGCGGCGTGAAGGCCAGGCAGCCATGGGGTTTACTGCAGCAACGTTACTGCAATTAAAATAACCCACCACGGCTAGGGAGTCCAGGGGAAGAGCCCGGCCTCGGGCTTCCCAGGGAGGGGCTGTGGGGGGCTGGGGAGAGGCGAGGCCAGGGCAGCAGGCTGAGGTGGGCCCCAGCTCCCCACAGGCCACTGAGGTCTGTTGCTTCCCCCACAG
Seq C2 exon
GAACAGTCACAGTGCAGGTGCTGGAAGCCATCCCCACCAGCGGCCTCACTGCGGCGGACGTCCCTGCGCTCGTGGACACCTGCCACCGGGCCATGAGGACCACCTTCCTCCACATCTCCAAGACCCCCCAGGAGAACGGGGCCACTGCGGGGTCTGGCGTGCAGCCGGCCCAGTAGCCCAGACCACGGCAGGGCATGACCTGGGGAGGGCAGGTGGAAGCCGATGGCTGGAGGATGGGCAGAGGGGACTCCTCCCGGCTTCCAAATACCACTCTGTCCGGCTCCCCCAGCTCTCACTCAGCCCGGGAAGCAGGAAGCCCCTTCTGTCACTGGCCTCAGACACAGGCCCCTGGTGTCCCCTGCAGGGGGCTCAGCTGGACCCTCCCCGGGCTCGAGGGCAGGGACTCGCGCCCACGGCACCTCTGGGAGCTGGGATGATAAAGATGAGGCTTGCGGCTGTGGCCCGCTGGTGGGCTGAGCCACAAGGCCCCCGATGGCCCAGGAGCAGATGGGAGGACCCCGAGGCCAGACGCACACTGTCCGAGCCCTCTGCTCAGCCGCCTGGGACCCACCAGGGTGCAGCTGGGCTCCAGGGTCCAGCCCACAAGCTGCATCAGGCTCTCTGGGAGAGGAGGGGCCTGGAGGGCCAGGAGTCCCAGACTCACGCACCCTGGGCCACAGGGAGCCGGGAATCGGGGCCTGCTGCTCCTGCTGGCCTGGAAGACTCTGTGGGGTCAGCACTGTACTCCGTTGCTGTTTTTTTATAAACACACTCTTGGAAGTGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169692-AGPAT2:NM_006412:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.224
Domain overlap (PFAM):
C1:
PF0155316=Acyltransferase=PD(6.2=32.0)
A:
NA
C2:
NO
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:
CCCCGTGGTGTACTCTTCCTT
R:
GCCGGACAGAGTGGTATTTGG
Band lengths:
343-1150
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)