MmuINT0012723 @ mm10
Intron Retention
Gene
ENSMUSG00000034254 | Agpat1
Description
1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha) [Source:MGI Symbol;Acc:MGI:1932075]
Coordinates
chr17:34610445-34611005:+
Coord C1 exon
chr17:34610445-34610644
Coord A exon
chr17:34610645-34610871
Coord C2 exon
chr17:34610872-34611005
Length
227 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
TCCTTGCTGTGACCCCACAGGAT
3' ss Score
10
Exon sequences
Seq C1 exon
GTGACCAGAATGGAGCTGTGGCCCGGGGCCTGGACGGCGCTGCTGCTGCTGCTGCTCCTGCTGCTGTCCACCCTGTGGTTCTGCAGCTCCAGTGCCAAGTATTTCTTTAAGATGGCCTTCTACAACGGCTGGATCCTCTTCCTGGCGATCCTCGCAATCCCCGTGTGTGCTGTGCGAGGGCGCAATGTCGAGAACATGAA
Seq A exon
GTAAGAGGGGAAGGGGTGAGAAGCGGTGGGTCTTGACAGAGCCCAAGGGGGAGAACGGACTGGAAGTGGAAGATTTGCAGGGGAAAAGAACCCAGACACAAACCCAGAGACAAGGATGGGGGAGAGGATACAGAGGCGGCCAGAATGCAAGGAATAGGTAGCGGGTATGGAGGTTGGCATGTGGACGCCAGAGAATCCCACCGGGCCTCCTTGCTGTGACCCCACAG
Seq C2 exon
GATCTTGCGTCTGCTGCTGCTCCACGTCAAATACCTGTATGGGATCCGAGTGGAGGTGCGCGGGGCTCACCACTTCCCTCCCACGCAGCCCTACGTGGTTGTGTCCAACCACCAGAGTTCCCTCGACCTGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034254:ENSMUST00000037489:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0155316=Acyltransferase=PU(22.5=63.0)
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:
GTGACCAGAATGGAGCTGTGG
R:
GACACAACCACGTAGGGCTG
Band lengths:
305-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types