HsaINT0126458 @ hg19
Intron Retention
Gene
ENSG00000153246 | PLA2R1
Description
phospholipase A2 receptor 1, 180kDa [Source:HGNC Symbol;Acc:9042]
Coordinates
chr2:160806119-160808089:-
Coord C1 exon
chr2:160807851-160808089
Coord A exon
chr2:160806288-160807850
Coord C2 exon
chr2:160806119-160806287
Length
1563 bp
Sequences
Splice sites
5' ss Seq
GATGTAGGT
5' ss Score
4.9
3' ss Seq
GGCTCAGTTTTCCTCCACAGAAT
3' ss Score
8.15
Exon sequences
Seq C1 exon
ATACTTCTGGACACGGTGTAAATACATCTGATATGTATCCAATGCCCAATACCTTAGAATATGGAAACAGAACTTACAAAATAATTAATGCAAATATGACTTGGTATGCAGCAATAAAAACCTGCCTGATGCACAAAGCACAACTGGTCAGCATCACAGACCAGTATCACCAGTCCTTCCTCACTGTTGTCCTCAACCGGCTAGGATATGCCCACTGGATTGGACTGTTCACCACAGAT
Seq A exon
GTAGGTATCCTAACTCCCTTGAGACATCCTTGAATAATTAAGTTTAGCATCTACCTCCTTCATGATCTGGCCACTGAAATTAGCACTGAAAAAAAGATCCCAAAAATATTAATAAATATAACACTTAAATAATTGGTTTATGCAATTACCTGACCAACCTTATGAACAGCCTATGACTACAAAATAAGAGTGCACACCTCTTTAGGGTAAACATCCACTTGCCTAATGTCTGGAAATTAATACCATTCAAAGGTTCTCTGAAAATTTCCAAGTACCCCGATACTGCCTTGCATGTGCACTGGAACACAGCTGAAACTCAAGCACTGCATTTGGGAATTTGCGGCATTTAATGAATCCCCAAGAAAAAACGAATCATGCTTCTTGTCTAGAAATGTGATTATTAATTAGTTTAGTACCACTTATAATTAAGCACTTGAGGTTTTATTTTCCTCTAGGGATGTGGTTTAGAGAATACGTTATTTTCATTTTTTTAAATAAAATATTGTACACTCAAAGTAGTGAAAAGTAAACTAGTCTATCCTGACCCCTAGTTCTACTCCCTAATGTTAGTAATTGTGAACACTGTCTTGTGTGCCATCTAGAAATTTTCCATGTATACACATACATATTCATGTAATGGAAGAATATGTACATTGTTTTTCAAGCACAAATGAGATCCTATTCTACATGCTGTCTTTAAACTTGCTTTTTAATTTAATATATCTTTAACAACTTCACATGTCAGCACATAAAAATCTCATGAATTCTTTAGAACGCAGCATGTAAGGATATACCACAACTTATTAAACCATTCTCCTGTGAATAGACATTTGGGTTCTTCTCAGTTTTTCACAGTTATAAACAATGCACAACAAATATCCTTGTGCCAGTAGGATAATTTTTTAGAAGTAAAATTGCTGCGTACACTTAAAATTTTGACAAGTACTACCAAATTGCCCTCCAAGAGTTTGCACCAATTTACATGCCAACAACAGTATGTGATAATGTCTAGTTTTTTCACATCCTTGTCAACACCAGGTATTCTCAAAATTTTAATCCTTGCCAGTGGGAGAGATAAATGAATGATATTTCATGATTATTTATTGCATCATGTAGTACAGAATGTTTTAACTTCATGTAGTCAGTTTTGCTTTATAGCCTCTGGATTTTCTATGACTTGGAAAGGTTTTCCCCACACCAACAGTATAAAAAAATTTAACCAGGTTTTCTTTAACATGTTTATGTTTTCAATTTTATGTTTGAATAATTGATCAATCTGAAATGTATTTCACTGTAAAAGACAAGGTACTGGTCCAATTTCACGCCGATTGCTCACTAGAAAATCATTGTGGCAGGGAGCCAAGAATTCCTAAAAATCAAAAAAGATCTCATTTGTGGCAGATATTCCTGTTTGTCAAGCTGTATTCACAGATGTCCTAGCCCCTCTTTAAAAAGGTGTGCAGAAATAGCAATCGATGTGGGAATTGTAGCATGCTCAGATAACACTGGGTGATGCTGCCAGCCGTCGTGGCAAGGAAATGATGGCTCAGTTTTCCTCCACAG
Seq C2 exon
AATGGTCTTAATTTTGACTGGTCTGATGGCACCAAATCTTCTTTCACTTTTTGGAAAGATGAGGAGTCCTCCCTCCTTGGTGACTGCGTTTTTGCCGACAGCAACGGACGCTGGCATAGCACAGCCTGCGAGTCATTTCTGCAAGGTGCCATTTGTCATGTGCCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000153246-PLA2R1:NM_001195641:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 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:
TGTATCCAATGCCCAATACCTT
R:
AGAAATGACTCGCAGGCTGTG
Band lengths:
346-1909
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)