Special

HsaEX0044723 @ hg19

Exon Skipping

Gene
Description
oxidized low density lipoprotein (lectin-like) receptor 1 [Source:HGNC Symbol;Acc:8133]
Coordinates
chr12:10310904-10313524:-
Coord C1 exon
chr12:10313385-10313524
Coord A exon
chr12:10312946-10313061
Coord C2 exon
chr12:10310904-10312620
Length
116 bp
Sequences
Splice sites
3' ss Seq
AGAAACATTACTCCCCACAGGAC
3' ss Score
5.77
5' ss Seq
CTTGTAAGT
5' ss Score
8
Exon sequences
Seq C1 exon
CTCCTTGTCCGCAAGACTGGATCTGGCATGGAGAAAACTGTTACCTATTTTCCTCGGGCTCATTTAACTGGGAAAAGAGCCAAGAGAAGTGCTTGTCTTTGGATGCCAAGTTGCTGAAAATTAATAGCACAGCTGATCTG
Seq A exon
GACTTCATCCAGCAAGCAATTTCCTATTCCAGTTTTCCATTCTGGATGGGGCTGTCTCGGAGGAACCCCAGCTACCCATGGCTCTGGGAGGACGGTTCTCCTTTGATGCCCCACTT
Seq C2 exon
ATTTAGAGTCCGAGGCGCTGTCTCCCAGACATACCCTTCAGGTACCTGTGCATATATACAACGAGGAGCTGTTTATGCGGAAAACTGCATTTTAGCTGCCTTCAGTATATGTCAGAAGAAGGCAAACCTAAGAGCACAGTGAATTTGAAGGCTCTGGAAGAAAAGAAAAAAGTCTTTGAGTTTTATTCTGGAATTTAAGCTATTCTTTGTCACTTGGGTGCCAAACATGAGAGCCCAGAAAACTGTCATTTAGCTGGCTGCAGAACTCCTTTGCAGAAACTGGGGTTCCAGGAGCCTGGCACCTTTATGTCAACATTTTTGATTCTAGCTACCTGTATTATTTCACCTAGCTTGTCCCAAGCTTCCCTGCCAGCCTGAAGTCCATTTTCCCCTTTTTATTTTAAAATTTGACTCCTCTTCAAGCTTGAAAACCCTCTGAACTCAGTCTTCTTTACCTCATTATCACCTTCCCCTCACACTCCTAAAATTGCATGAAAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173391_MULTIEX1-3/3=2-C2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (No Ref, Alt. Stop)

Show PDB structure
Features
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):

C1:
PF083915=Ly49=PD(12.6=34.0),PF043759=HemX=PD(8.6=27.7),PF130941=CENP-Q=PD(30.9=80.9),PF0149614=V_ATPase_I=PD(31.3=89.4),PF054737=Herpes_UL45=FE(79.3=100)
A:
PF083915=Ly49=PD(2.6=7.7),PF039389=OmpH=PD(0.1=0.0),PF041117=APG6=PD(6.4=17.9)
C2:
PF0005916=Lectin_C=PD(36.8=81.2)


Main Inclusion Isoform:


Main Skipping Isoform:


Other Skipping Isoforms:
NA
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCGGGCTCATTTAACTGGG
R:
AGCCTTCAAATTCACTGTGCTCT
Band lengths:
242-358
Functional annotations
There are 2 annotated functions for this event
PMID: 15976314
This event
Macrophages from subjects carrying the non-risk disease haplotype at OLR1 gene have an increased expression of LOXIN (skipping exon 5) at mRNA and protein level, which results in a significant reduction of apoptosis in response to oxLDL. Expression of LOXIN in different cell types results in loss of surface staining, indicating that truncation of the C-terminal portion of the protein has a profound effect on its cellular trafficking. Furthermore, the proapoptotic effect of LOX-1 receptor in cell culture is specifically rescued by the coexpression of LOXIN in a dose-dependent manner.
PMID: 18191942
This event
LOXIN lacks part of the C-terminus lectin-like domain. In vivo and in vitro studies support that the new splicing isoform is protective against acute myocardial infarction. The mechanism by which LOXIN exerts its protective role is unknown. In this paper the authors report studies on the heterologous expression and functional characterization of LOXIN variant in mammalian fibroblasts and human endothelial cells. The authors found that LOXIN, when expressed in the absence of LOX-1, shows diminished plasma membrane localization and is deficient in ox-LDL ligand binding. When co-transfected with the full-length counterpart LOX-1, the two isoforms interact to form LOX-1 oligomers and their interaction leads to a decrease in the appearance of LOX-1 receptors in the plasma membrane and a marked impairment of ox-LDL binding and uptake. Co-immunoprecipitation studies confirmed the molecular LOX-1/LOXIN interaction and the formation of non-functional hetero-oligomers.


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • The Cancer Genome Atlas (TCGA)
  • Genotype-Tissue Expression Project (GTEx)
  • Autistic and control brains
  • Pre-implantation embryo development