MmuINT0012724 @ mm9
Intron Retention
Gene
ENSMUSG00000034254 | Agpat1
Description
1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha) [Source:MGI Symbol;Acc:MGI:1932075]
Coordinates
chr17:34747817-34748394:+
Coord C1 exon
chr17:34747817-34747950
Coord A exon
chr17:34747951-34748218
Coord C2 exon
chr17:34748219-34748394
Length
268 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
CATCCCCCACCCCTGCCAAGGAA
3' ss Score
4.02
Exon sequences
Seq C1 exon
GATCTTGCGTCTGCTGCTGCTCCACGTCAAATACCTGTATGGGATCCGAGTGGAGGTGCGCGGGGCTCACCACTTCCCTCCCACGCAGCCCTACGTGGTTGTGTCCAACCACCAGAGTTCCCTCGACCTGCTTG
Seq A exon
GTGAGGCCTCACAGGGCCCAGTCCTCTAGCAGAGCCTTCTGGCCCCTCCCATACCTGCTTTTCCCTCCTCTTGGATGTCATCTGTCCTCAGGCCTCCTTCCCCTGGGGTGGGTCTGCCCTCGGCAGGTGCACATACCTGTGCCAACCTCAGTTTCTCAGGCCTTTCCCATCCCACTCTTCAGTGTGTGGGGGTGGTGTCCTGGTGGGTGGCAGTGCCCTACGATGCTGCTTGTGCCCTGATCCACCCCCATCCCCCACCCCTGCCAAG
Seq C2 exon
GAATGATGGAGGTCCTGCCAGATCGTTGTGTGCCCATTGCCAAGCGTGAGCTACTATGGGCTGGCTCTGCTGGGCTGGCCTGCTGGCTGGCAGGAATCATCTTCATTGACCGGAAACGCACAGGGGACGCCATCAGTGTCATGTCCGAGGTGGCTCAGACCTTGCTCACCCAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034254-Agpat1:NM_001163379:3
Average complexity
IR-S
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=PU(22.5=63.0)
A:
NA
C2:
PF0155316=Acyltransferase=PD(57.1=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGCTCCACGTCAAATACC
R:
ATCCTGGGTGAGCAAGGTCTG
Band lengths:
296-564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: