MmuINT0121151 @ mm9
Intron Retention
Gene
ENSMUSG00000054580 | Pla2r1
Description
phospholipase A2 receptor 1 [Source:MGI Symbol;Acc:MGI:102468]
Coordinates
chr2:60265684-60266801:-
Coord C1 exon
chr2:60266563-60266801
Coord A exon
chr2:60265853-60266562
Coord C2 exon
chr2:60265684-60265852
Length
710 bp
Sequences
Splice sites
5' ss Seq
GACGTAGGT
5' ss Score
6.78
3' ss Seq
GCTTCAAATCCCCTCTGCAGAAT
3' ss Score
7.78
Exon sequences
Seq C1 exon
ACACCCTTGAACACCATGTAAACGTGTCTGATACGTCTGCAATCCCCAGTACGTTAGAATATGGAAACAGAACTTATAAGATAATCCGTGGTAATATGACTTGGTATGCAGCCGGAAAGTCCTGCCGGATGCACAGAGCAGAACTGGCCAGCATTCCAGATGCGTTTCACCAGGCCTTCCTCACGGTTCTCCTCAGCAGGCTGGGACACACCCACTGGATTGGACTCTCCACCACAGAC
Seq A exon
GTAGGTGTTCTCAGTCCCTCCCTTCTGTCTACTTCCTTAGTAAAACAACGCTGAAATCAGCATGCAAAAACAACTCCCAGACACAATAGTAACATTGTAACATTTCAATAATGGTTTATGCAAAAAAAACACTGGGTTTTGGTTGGTTGGTTGCTTGGTTGGTTGCTTGGTTTTGATATTTTGGTGATGGTGGTGGTGGTTTGAGAATCCCAAGGCTATAAAACAAAAGTATAAATCTTTTCCAGATAAACATGCCCTTGCCTGGTTTCTAAGGACCCCAAGGGTCCTTTGAAAATTCTCTAGCATCCCTGAGTACTGACTCATTTATGCAACGAAATACATCTCAAACTCAAGTACCGTATGTGGGTAATTTGTTAGATTTCCAGAATCTCCATTAAAAAAAAAAAAAGAAAGAAATGATTGCTGCTTTGTACTCAGAAACTTTATTATTAATTAATTCACTACCTTTGAAATACAACACGCAGAATTCTGTTTGTGTGAGTTTGATTTTTTGTTTTGTTTTGTTTTTGCTTCTTAAAAACAAGACTATTACATACTTAAATTGCTGAAAAATAAACTCTGTTCCCTCCACGGCCTCTGGGTCTTTTGGAAAGAAGTGTGGAACTTGGGAGGAGTGGGTACTCAGTTAGTGCTGGGTGATCCCAGCTGCAGCCTTGGCAATGAAGTGGTGCTTCAAATCCCCTCTGCAG
Seq C2 exon
AATGGTCAGACTTTTGACTGGTCGGACGGCACCAAATCCCCTTTCACCTATTGGAAGGATGAGGAGTCGGCCTTTCTTGGTGACTGCGCTTTTGCTGACACCAACGGACGCTGGCATAGCACAGCCTGCGAGTCATTTCTGCAAGGCGCCATTTGTCACGTAGTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054580-Pla2r1:NM_008867:24
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:
PF0005916=Lectin_C=PU(47.1=61.2)
A:
NA
C2:
PF0005916=Lectin_C=PD(51.0=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGCAATCCCCAGTACGTT
R:
AGAAATGACTCGCAGGCTGTG
Band lengths:
345-1055
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: