HsaINT0005587 @ hg19
Intron Retention
Gene
ENSG00000169692 | AGPAT2
Description
1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta) [Source:HGNC Symbol;Acc:325]
Coordinates
chr9:139571413-139572008:-
Coord C1 exon
chr9:139571875-139572008
Coord A exon
chr9:139571589-139571874
Coord C2 exon
chr9:139571413-139571588
Length
286 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGC
5' ss Score
6.03
3' ss Seq
TCTGTCTCTCTGTCTCCCAGGCC
3' ss Score
11.48
Exon sequences
Seq C1 exon
CATCATCGGCTGGTTCGTGCGAAGCTTCAAGTACTTTTACGGGCTCCGCTTCGAGGTGCGGGACCCGCGCAGGCTGCAGGAGGCCCGTCCCTGTGTCATCGTCTCCAACCACCAGAGCATCCTGGACATGATGG
Seq A exon
GTAGGCCGGGCCTCGGGGGTGGCTTCTGGGGTTTGAGTGGGGCCGGCTGAGCTGGGGCTGTGTGGGGCTGGGTCCCGGGGACGAGGACACAGGGCTGCCTGTGCCTGGGCGAGCTCGGCCTCAGTACCTCCCTCAGGGCCAGACACAGAGGCTCGGAGGCCACACGACCCGTCCAGGTAGCCAGGGAGAAGGCAGGGTGCCAGGCAGGCCTGTGGGTGCTCAGCAGCTGTCTTCCAGCGCACGCTGTCTCCCCCTCTCTCTCTGTCTCTGTCTCTCTGTCTCCCAG
Seq C2 exon
GCCTCATGGAGGTCCTTCCGGAGCGCTGCGTGCAGATCGCCAAGCGGGAGCTGCTCTTCCTGGGGCCCGTGGGCCTCATCATGTACCTCGGGGGCGTCTTCTTCATCAACCGGCAGCGCTCTAGCACTGCCATGACAGTGATGGCCGACCTGGGCGAGCGCATGGTCAGGGAGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169692-AGPAT2:NM_006412:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0155316=Acyltransferase=PU(22.5=63.0)
A:
NA
C2:
PF0155316=Acyltransferase=FE(45.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCATCGGCTGGTTCGTGC
R:
TTCTCCCTGACCATGCGCTC
Band lengths:
308-594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)