MmuINT0121154 @ mm10
Intron Retention
Gene
ENSMUSG00000054580 | Pla2r1
Description
phospholipase A2 receptor 1 [Source:MGI Symbol;Acc:MGI:102468]
Coordinates
chr2:60422605-60424375:-
Coord C1 exon
chr2:60424259-60424375
Coord A exon
chr2:60422782-60424258
Coord C2 exon
chr2:60422605-60422781
Length
1477 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CAGCATTTTTTTTCCCACAGACA
3' ss Score
9.14
Exon sequences
Seq C1 exon
GATCTAATCTGTTGGCAATCAGGGATGCGGCTGAAAATTCATTTCTCCTGGAAGAGCTTCTTGCGTTTGGGTCTTCTGTGCAGATGGTTTGGTTGAATGCTCAGTTTGATAATAACA
Seq A exon
GTAAGTGCCATGGGTGCAGAGGAGGCGCAAGTAAACACGCAGTCCTGAAGGCCTCTGGGAGCCCCAGGATGCCTCTTGAACACAATTGCTGTGAAAATATAGTGTGAACCCTAAAGCCACACCTCCAAACAAAACAAACGGACAAGTTAACCTTCACTGGGACACTGAAGCTGCTAGTTCCAGCTCTGTCCCCGGGCTTAGTCATACAAAGGCAAGACACGTTGACCTGAAAACACCCCACTTTCTCAAGCGTTCGGTATAAACCACAACAGGATGGGGGAGCTGTTTCAGTGAACAGCTGTGCTTTTTGAATCCTTATAGACACCAGTGTGTATAATCGGAGGCACACTATTCTTTATGTAACTGATTGTCTTGGTCAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCAAGTTGGAGAGGAAAGGGTTTATTCAGCTTACACTTCCACACTGCTGTTCATCACCAAGGAAGTCAGGACTGGAACTCAAGCAGGTCAGGAAGCAGGAGCTGATGCAGAGGCCATGGAGGGATGTTCCTTACTGGCTTGCTTCCCCTGACTTGCTCTGCCTGCTCTCTTATAGAACCCAAGACTACCAGCCCAGAGATGGTCCCACCCACAATGGGCCTTTCCCCCTTGATCACTAATTGAGAGAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCCCAACTAAAGCTCCTTTCTCTGTGATAACTCCAGCTGGGTCAAGTTGACACAAAACTAGCCAGTACACTGATGTTATTGAAAAGTACTTGTAAAGAAAAGTATTTTAATTGGCATAGAGAGTGTGTCACAGTGGTGCAGGATGGTGGGTATGGAGACCCTCCTCGCAAGGGGTATTTTAATCCTGGACATTGTTTGAATTTCTAGCCGATGGCGATAACCAAAGGCAAGCCAACTTGCAGTTCACTTTGTTGTTAGTTATAAATTCTTTTCAGACAGTGCAACACACCACACACACCACACACACACACCACACACACACACACACACACACACATACTTACACACACACACACATACACACACACACACACACACACATACACACACACACACACTTACACACGCACACATACTTACACACACACACATATCACACATACACACATACTTTCACACACGCACACACGCACACACCGTATTAACTATGTATGGGCTGAATTTTCCCACTGAATCACTTCCCGTATAAGAATGGCTTTAGGAAATGAACCTTCTTGCTATGGTGTTGATGTTAGAATTTCAAGGGATTTTCTATACATTAATTTTACTTTCTATGTGACCGCCTGGCTGGATACGTATCTTTTTTGATGTTTTGTTCATGAATATACTCATGGAATTAAATGTGCCTCCTTAAATTTGGAGGCTGCTTTAAGGACTGATCCCAGTCTTAGACTGTTAATCATGCACTTCATTCATAACAAGCCAGCATTTTTTTTCCCACAG
Seq C2 exon
ACAAAACCTTAAGGTGGTTTGACGGAACACCCACAGAGCAGTCCAACTGGGGCCTTCGGAAGCCAGACATGGACCACCTCAAGCCACATCCGTGTGTTGTCCTGAGGATCCCGGAAGGAATATGGCACTTTACCCCATGCGAGGACAAAAAGGGGTTCATATGTAAAATGGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054580:ENSMUST00000112525:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=FE(35.1=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(50.5=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GATCTAATCTGTTGGCAATCAGGGA
R:
CTGCTTCCATTTTACATATGAACCCC
Band lengths:
294-1771
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