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Aliases for LCP1 Gene

Aliases for LCP1 Gene

  • Lymphocyte Cytosolic Protein 1 2 3 4 5
  • LC64P 3 4
  • LCP-1 3 4
  • PLS2 3 4
  • L-Plastin (Lymphocyte Cytosolic Protein 1) (LCP-1) (LC64P) 3
  • BA139H14.1 (Lymphocyte Cytosolic Protein 1 (L-Plastin)) 3
  • Lymphocyte Cytosolic Protein 1 (L-Plastin) 2
  • Lymphocyte Cytosolic Protein-1 (Plasmin) 3
  • Epididymis Secretory Protein Li 37 3
  • L-PLASTIN 3
  • Plastin-2 3
  • L-Plastin 4
  • Plastin 2 2
  • HEL-S-37 3
  • CP64 3
  • LPL 3

External Ids for LCP1 Gene

Previous GeneCards Identifiers for LCP1 Gene

  • GC13M044700
  • GC13M040687
  • GC13M045636
  • GC13M044498
  • GC13M045598
  • GC13M046700
  • GC13M027497

Summaries for LCP1 Gene

Entrez Gene Summary for LCP1 Gene

  • Plastins are a family of actin-binding proteins that are conserved throughout eukaryote evolution and expressed in most tissues of higher eukaryotes. In humans, two ubiquitous plastin isoforms (L and T) have been identified. Plastin 1 (otherwise known as Fimbrin) is a third distinct plastin isoform which is specifically expressed at high levels in the small intestine. The L isoform is expressed only in hemopoietic cell lineages, while the T isoform has been found in all other normal cells of solid tissues that have replicative potential (fibroblasts, endothelial cells, epithelial cells, melanocytes, etc.). However, L-plastin has been found in many types of malignant human cells of non-hemopoietic origin suggesting that its expression is induced accompanying tumorigenesis in solid tissues. [provided by RefSeq, Jul 2008]

GeneCards Summary for LCP1 Gene

LCP1 (Lymphocyte Cytosolic Protein 1) is a Protein Coding gene. Among its related pathways are NF-kappaB Signaling. Gene Ontology (GO) annotations related to this gene include calcium ion binding and actin binding. An important paralog of this gene is PLS3.

UniProtKB/Swiss-Prot for LCP1 Gene

  • Actin-binding protein (PubMed:16636079, PubMed:17294403, PubMed:28493397). Plays a role in the activation of T-cells in response to costimulation through TCR/CD3 and CD2 or CD28 (PubMed:17294403). Modulates the cell surface expression of IL2RA/CD25 and CD69 (PubMed:17294403).

Gene Wiki entry for LCP1 Gene

Additional gene information for LCP1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LCP1 Gene

Genomics for LCP1 Gene

GeneHancer (GH) Regulatory Elements for LCP1 Gene

Promoters and enhancers for LCP1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH13J046163 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 671.3 +37.1 37075 21.8 HDGF PKNOX1 SMAD1 ZNF2 IRF4 YY1 POLR2B ZNF766 ZNF143 JUNB LCP1 ERICH6B COG3 RNU2-6P RUBCNL LRRC63 TPT1-AS1 ZC3H13 RN7SL288P LOC105370192
GH13J046210 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 650.7 +0.4 434 2.1 PKNOX1 ATF1 ARNT TCF12 GLIS2 ZNF143 KLF7 NCOA1 REST GMEB1 LRRC63 LCP1 LOC105370192
GH13J046403 Enhancer 1.2 FANTOM5 Ensembl ENCODE dbSUPER 18.5 -192.9 -192869 2.3 CTCF PKNOX1 RFX1 ZNF341 MAX ETV6 MYC SPI1 OR7E101P LCP1 RNU2-6P LINC01198 RUBCNL ZC3H13 GC13P046411 GC13P046380
GH13J046159 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 11.9 +50.8 50817 3.1 CTCF IRF3 MAX RAD21 YY1 NFATC1 SMC3 ZNF143 ATF7 MIXL1 LCP1 RUBCNL ZC3H13 RN7SL288P ENSG00000278937
GH13J046293 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 9.5 -83.9 -83932 4.8 RAD21 YY1 ZNF766 EGR1 BCLAF1 RUNX3 RXRA CEBPB ZEB2 REST LCP1 LINC01198 RUBCNL ZC3H13 LINC00563 GC13P046277 LOC105370194 GC13M046284
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LCP1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LCP1 gene promoter:
  • Lmo2
  • AML1a
  • NF-E2 p45
  • NF-E2
  • Pax-2
  • Pax-2a
  • Cdc5

Genomic Locations for LCP1 Gene

Genomic Locations for LCP1 Gene
chr13:46,125,920-46,211,871
(GRCh38/hg38)
Size:
85,952 bases
Orientation:
Minus strand
chr13:46,700,055-46,786,006
(GRCh37/hg19)
Size:
85,952 bases
Orientation:
Minus strand

Genomic View for LCP1 Gene

Genes around LCP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCP1 Gene

Proteins for LCP1 Gene

  • Protein details for LCP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P13796-PLSL_HUMAN
    Recommended name:
    Plastin-2
    Protein Accession:
    P13796
    Secondary Accessions:
    • B2R613
    • B4DUA0
    • Q5TBN4

    Protein attributes for LCP1 Gene

    Size:
    627 amino acids
    Molecular mass:
    70288 Da
    Quaternary structure:
    • Monomer. Interacts with AIF1 (By similarity). Interacts with actin (PubMed:28493397).

    Three dimensional structures from OCA and Proteopedia for LCP1 Gene

    Alternative splice isoforms for LCP1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LCP1 Gene

Post-translational modifications for LCP1 Gene

  • Phosphorylated on a serine residue in response to costimulation through TCR/CD3 and CD2 or CD28. Serine phosphorylation promotes association with the actin cytoskeleton and targeting to peripheral cell projections.
  • Ubiquitination at isoforms=2610, posLast=584584, posLast=542542, isoforms=2472, posLast=468468, isoforms=434, posLast=361361, isoforms=297, posLast=285285, isoforms=165, posLast=9797, isoforms=88, posLast=8282, and posLast=7676
  • Modification sites at PhosphoSitePlus

Other Protein References for LCP1 Gene

No data available for DME Specific Peptides for LCP1 Gene

Domains & Families for LCP1 Gene

Gene Families for LCP1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Disease related genes
  • Plasma proteins
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for LCP1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LCP1: view

No data available for UniProtKB/Swiss-Prot for LCP1 Gene

Function for LCP1 Gene

Molecular function for LCP1 Gene

UniProtKB/Swiss-Prot Function:
Actin-binding protein (PubMed:16636079, PubMed:17294403, PubMed:28493397). Plays a role in the activation of T-cells in response to costimulation through TCR/CD3 and CD2 or CD28 (PubMed:17294403). Modulates the cell surface expression of IL2RA/CD25 and CD69 (PubMed:17294403).
GENATLAS Biochemistry:
lymphocyte cytosolic protein 1,plastin L,64kDa,actin binding protein,expressed in hemopoietic cells,overexpressed in tumerogenesis,involved in translocation t(3;13)(q27;q14) in B cell non-Hodgkin lymphoma,also involved in other translocations with acute myeloid leukemia

Phenotypes From GWAS Catalog for LCP1 Gene

Gene Ontology (GO) - Molecular Function for LCP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003779 actin binding NAS 2252891
GO:0005178 integrin binding IPI 20183869
GO:0005509 calcium ion binding NAS 2378651
GO:0005515 protein binding IEA --
GO:0042802 identical protein binding IEA --
genes like me logo Genes that share ontologies with LCP1: view
genes like me logo Genes that share phenotypes with LCP1: view

Animal Models for LCP1 Gene

MGI Knock Outs for LCP1:
  • Lcp1 Lcp1<tm1Erjb>

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LCP1 Gene

Localization for LCP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LCP1 Gene

Cytoplasm, cytoskeleton. Cell junction. Cell projection. Cell projection, ruffle membrane; Peripheral membrane protein; Cytoplasmic side. Note=Relocalizes to the immunological synapse between peripheral blood T-lymphocytes and antibody-presenting cells in response to costimulation through TCR/CD3 and CD2 or CD28 (PubMed:17294403). Associated with the actin cytoskeleton at membrane ruffles. Relocalizes to actin-rich cell projections upon serine phosphorylation (PubMed:16636079). {ECO:0000250 UniProtKB:Q61233, ECO:0000269 PubMed:16636079, ECO:0000269 PubMed:17294403}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LCP1 gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytoskeleton 5
cytosol 5
nucleus 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Actin filaments (2)
  • Cytosol (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LCP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001725 colocalizes_with stress fiber IMP 16636079
GO:0001726 ruffle IMP 16636079
GO:0001891 phagocytic cup IEA --
GO:0002102 podosome IDA 24236012
GO:0005615 extracellular space HDA 16502470
genes like me logo Genes that share ontologies with LCP1: view

Pathways & Interactions for LCP1 Gene

SuperPathway Contained pathways
1 NF-kappaB Signaling
genes like me logo Genes that share pathways with LCP1: view

Pathways by source for LCP1 Gene

1 Cell Signaling Technology pathway for LCP1 Gene

SIGNOR curated interactions for LCP1 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for LCP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002286 T cell activation involved in immune response IDA 17294403
GO:0010737 protein kinase A signaling IMP 16636079
GO:0016477 cell migration IMP 16636079
GO:0022617 extracellular matrix disassembly IMP 24236012
GO:0031100 animal organ regeneration IEA --
genes like me logo Genes that share ontologies with LCP1: view

Drugs & Compounds for LCP1 Gene

(7) Drugs for LCP1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(5) Additional Compounds for LCP1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LCP1: view

Transcripts for LCP1 Gene

mRNA/cDNA for LCP1 Gene

Unigene Clusters for LCP1 Gene

Lymphocyte cytosolic protein 1 (L-plastin):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LCP1 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^
SP1: - - - - - - -
SP2: -
SP3: - - - -
SP4: - - -
SP5:
SP6: -
SP7: - -

ExUns: 19a · 19b · 19c
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:

Relevant External Links for LCP1 Gene

GeneLoc Exon Structure for
LCP1
ECgene alternative splicing isoforms for
LCP1

Expression for LCP1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LCP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LCP1 Gene

This gene is overexpressed in Whole Blood (x32.4).

Protein differential expression in normal tissues from HIPED for LCP1 Gene

This gene is overexpressed in NK cells (9.5), Tlymphocyte (8.2), and Monocytes (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LCP1 Gene



Protein tissue co-expression partners for LCP1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LCP1 Gene:

LCP1

SOURCE GeneReport for Unigene cluster for LCP1 Gene:

Hs.381099

mRNA Expression by UniProt/SwissProt for LCP1 Gene:

P13796-PLSL_HUMAN
Tissue specificity: Detected in intestinal microvilli, hair cell stereocilia, and fibroblast filopodia, in spleen and other lymph node-containing organs. Expressed in peripheral blood T-lymphocytes, neutrophils, monocytes, B-lymphocytes, and myeloid cells.

Evidence on tissue expression from TISSUES for LCP1 Gene

  • Blood(4.9)
  • Nervous system(4.5)
  • Liver(4.4)
  • Intestine(3.4)
  • Lymph node(3.4)
  • Lung(3.3)
  • Spleen(3.1)
  • Bone marrow(2.4)
  • Kidney(2)
genes like me logo Genes that share expression patterns with LCP1: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LCP1 Gene

Orthologs for LCP1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LCP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LCP1 34 33
  • 99.52 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LCP1 34 33
  • 91.92 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LCP1 34
  • 91 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LCP1 34
  • 91 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LCP1 34 33
  • 90.38 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Lcp1 16 34 33
  • 89.47 (n)
rat
(Rattus norvegicus)
Mammalia Lcp1 33
  • 89.42 (n)
chicken
(Gallus gallus)
Aves LCP1 34 33
  • 80.01 (n)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lcp1 33
  • 78.47 (n)
Str.15364 33
African clawed frog
(Xenopus laevis)
Amphibia lcp1-prov 33
zebrafish
(Danio rerio)
Actinopterygii lcp1 34 33 33
  • 74.09 (n)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10445 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004071 33
  • 55.94 (n)
fruit fly
(Drosophila melanogaster)
Insecta Fim 34 35 33
  • 55.83 (n)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea Y104H12BR.1 35
  • 57 (a)
plst-1 34 33
  • 56.5 (n)
ManyToMany
Y104H12BL.1 35
  • 51 (a)
Y73B3B.1 34 35
  • 34 (a)
ManyToMany
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGR069C 33
  • 51.47 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F19778g 33
  • 50.08 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SAC6 34 33
  • 49.24 (n)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G04750 33
  • 51.72 (n)
rice
(Oryza sativa)
Liliopsida Os02g0588300 33
  • 52.93 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes fim1 33
  • 51.91 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU03992 33
  • 51.33 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8022 34
  • 50 (a)
OneToMany
Species where no ortholog for LCP1 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for LCP1 Gene

ENSEMBL:
Gene Tree for LCP1 (if available)
TreeFam:
Gene Tree for LCP1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LCP1: view image

Paralogs for LCP1 Gene

Paralogs for LCP1 Gene

(2) SIMAP similar genes for LCP1 Gene using alignment to 4 proteins:

  • PLSL_HUMAN
  • B4DUA0_HUMAN
  • Q5TBN3_HUMAN
  • Q5TBN5_HUMAN
genes like me logo Genes that share paralogs with LCP1: view

Variants for LCP1 Gene

Sequence variations from dbSNP and Humsavar for LCP1 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs1000022692 -- 46,164,720(-) A/G intron_variant
rs1000255814 -- 46,161,801(-) A/G intron_variant
rs1000266183 -- 46,174,190(-) T/C genic_upstream_transcript_variant, intron_variant
rs1000274038 -- 46,161,557(-) C/A/T intron_variant
rs1000289456 -- 46,137,369(-) C/G/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LCP1 Gene

Variant ID Type Subtype PubMed ID
dgv223e201 CNV deletion 23290073
esv2001689 CNV deletion 18987734
esv2470452 CNV deletion 19546169
esv2747356 CNV deletion 23290073
esv3307309 CNV mobile element insertion 20981092
esv3324310 CNV insertion 20981092
esv3550413 CNV deletion 23714750
esv3631977 CNV loss 21293372
esv3631978 CNV loss 21293372
nsv1049556 CNV gain 25217958
nsv1051215 CNV gain 25217958
nsv455876 CNV gain 19166990
nsv526925 CNV loss 19592680
nsv561581 CNV gain 21841781
nsv819363 CNV loss 19587683
nsv832598 CNV gain 17160897
nsv951080 CNV duplication 24416366

Variation tolerance for LCP1 Gene

Residual Variation Intolerance Score: 47% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.99; 36.70% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LCP1 Gene

Human Gene Mutation Database (HGMD)
LCP1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LCP1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LCP1 Gene

Disorders for LCP1 Gene

UniProtKB/Swiss-Prot

PLSL_HUMAN
  • Note=Chromosomal aberrations involving LCP1 is a cause of B-cell non-Hodgkin lymphomas (B-cell NHL). Translocation t(3;13)(q27;q14), with BCL6. {ECO:0000269 PubMed:10469447}.
  • Note=Defects in LCP1 has been found in a patient with isolated coloboma, a defect of the eye characterized by the absence of ocular structures due to abnormal morphogenesis of the optic cup and stalk, and the fusion of the fetal fissure (optic fissure). Isolated colobomas may be associated with an abnormally small eye (microphthalmia) or small cornea. {ECO:0000269 PubMed:28493397}.

Additional Disease Information for LCP1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for LCP1 Gene.

No data available for MalaCards and Genatlas for LCP1 Gene

Publications for LCP1 Gene

  1. Costimulation induced phosphorylation of L-plastin facilitates surface transport of the T cell activation molecules CD69 and CD25. (PMID: 17294403) Wabnitz GH … Samstag Y (European journal of immunology 2007) 3 4 22 58
  2. Phosphorylation on Ser5 increases the F-actin-binding activity of L-plastin and promotes its targeting to sites of actin assembly in cells. (PMID: 16636079) Janji B … Friederich E (Journal of cell science 2006) 3 4 22 58
  3. Human plastin genes. Comparative gene structure, chromosome location, and differential expression in normal and neoplastic cells. (PMID: 8428952) Lin CS … Leavitt J (The Journal of biological chemistry 1993) 3 4 22 58
  4. Characterization of interleukin 2 stimulated 65-kilodalton phosphoprotein in human T cells. (PMID: 2111166) Zu Y … Namba Y (Biochemistry 1990) 2 3 4 58
  5. 65-kilodalton protein phosphorylated by interleukin 2 stimulation bears two putative actin-binding sites and two calcium-binding sites. (PMID: 2252891) Zu YL … Namba Y (Biochemistry 1990) 3 4 22 58

Products for LCP1 Gene

Sources for LCP1 Gene

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