HsaINT0126455 @ hg19
Intron Retention
Gene
ENSG00000153246 | PLA2R1
Description
phospholipase A2 receptor 1, 180kDa [Source:HGNC Symbol;Acc:9042]
Coordinates
chr2:160812209-160813138:-
Coord C1 exon
chr2:160813021-160813138
Coord A exon
chr2:160812340-160813020
Coord C2 exon
chr2:160812209-160812339
Length
681 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
AATGTATTCCTGTTTTTCAGCTT
3' ss Score
8.33
Exon sequences
Seq C1 exon
TGCCTTCTGCTGAATATCCCCAAAGACCCAAGCAGTTGGAAGAACTGGACGCATGCTCAACATTTCTGTGCTGAAGAAGGGGGGACCCTGGTCGCCATTGAAAGTGAGGTGGAGCAAG
Seq A exon
GTAGAGTACTCAAGATCCAACCAGGCCAAGATAACCATTTTTATTCAAGTATTTATTAAAATATCCCCCCCACCTATACTAACATTCCCAAATCAACATTTAAAATACTGTGTTGCTGATGATACACGAGTTTGCAGTTTGACCCATAGGTTTTATTTCATGATATCTGTAAAAGTTAGTGTACTGCATTGCTTATAAACTGCTGGGTTTTGGAGCCTTGTCTCTCACCAGTAGCAGTGGAAAGAATAAGGACATATTCATGGCCTATATTTCAAAATGGCTAAAAAGTATGATCTACATGTAATTGCATGGTATGATTTTTAGATCCCTTTACATTTACCTACATGCTTTTATTTGATATTTAATCAATTATATACTTCAGTTTAAATATAGCAGATAAATCCTCTTTTGTTTAGAAAGGTAATTAATGAACACTGGAAATTGTTTTGTTAATGATATGATGAAATCTCAGGTTATCCAGCTAATTTCTGTCAATTTAAACTAAAACAAAAGTGAAAGAAACTGCATTACCTTAACAAGGATAAAGTAACAAATTCCTATAAATGATTCATAATTATGTTTTGCTGGCATTTAAATATAATCATAGCTATAAATAGGATGCAGTGATTACCCAAATGCTTTCTACAGTATTAAATTAGATAATGTATTCCTGTTTTTCAG
Seq C2 exon
CTTTCATTACTATGAATCTTTTTGGCCAGACCACCAGTGTGTGGATAGGTTTACAAAATGATGATTATGAAACATGGCTAAATGGAAAGCCTGTGGTATATTCTAACTGGTCTCCATTTGATATAATAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000153246-PLA2R1:NM_001195641:21
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(23.5=70.0)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.1=100)
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:
TGCCTTCTGCTGAATATCCCC
R:
CAAATGGAGACCAGTTAGAATATACC
Band lengths:
238-919
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)