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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

HPCA Gene

protein-coding   GIFtS: 56
GCID: GC01P033351

hippocalcin

 Explore 4 diseases affiliated with
HPCA via our new
 Human Malady Compendium 
Biological research products
for HPCA
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Hippocalcin1
Calcium-Binding Protein BDR-22 3
BDR22 3
Neuron Specific Calcium-Binding Protein Hippocalcin2
Neuron-Specific Calcium-Binding Protein Hippocalcin2

External Ids:    HGNC: 51441   Entrez Gene: 32082   Ensembl: ENSG000001219057   OMIM: 1426225   UniProtKB: P840743   

Export aliases for HPCA gene to outside databases

Previous GC identifers: GC01P033171 GC01P032307 GC01P032778 GC01P032854 GC01P033021 GC01P033124 GC01P031469


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for HPCA:
The protein encoded by this gene is a member of neuron-specific calcium-binding proteins family found in the retina and
brain. This protein is associated with the plasma membrane. It has similarities to proteins located in the
photoreceptor cells that regulate photosignal transduction in a calcium-sensitive manner. This protein displays
recoverin activity and a calcium-dependent inhibition of rhodopsin kinase. It is identical to the rat and mouse
hippocalcin proteins and thought to play an important role in neurons of the central nervous system in a number of
species. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: HPCA_HUMAN, P84074
Function: May be involved in the calcium-dependent regulation of rhodopsin phosphorylation. Binds two calcium ions

Gene Wiki entry for HPCA (Hippocalcin)


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.1  NT_032977.9  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the HPCA gene promoter:
         Nkx3-1   CREB   deltaCREB   NRSF form 1   Nkx3-1 v3   NRSF form 2   GATA-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidHPCA promoter sequence
   Search SABiosciences Chromatin IP Primers for HPCA

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HPCA


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1p35-p34.2   Ensembl cytogenetic band:  1p35.1   HGNC cytogenetic band: 1p35-p34.2

HPCA Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HPCA gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P033351:  view genomic region     (about GC identifiers)

Start:
33,351,595 bp from pter      End:
33,364,042 bp from pter
Size:
12,448 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: HPCA_HUMAN, P84074 (See protein sequence)
Recommended Name: Neuron-specific calcium-binding protein hippocalcin  
Size: 193 amino acids; 22427 Da
Secondary accessions: B2R9T3 D3DPQ7 P32076 P41211 P70510

Explore the universe of human proteins at neXtProt for HPCA: NX_P84074

Post-translational modifications:

  • Myristoylation facilitates interaction with membranes (By similarity)1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P84074

  • HPCA Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_002134.2  
    ENSEMBL proteins: 
     ENSP00000362566  

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    Uscn Proteins for HPCA


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    Uscn ELISAs and CLIAs for HPCA


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    HPCA for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR001125 Recoverin
     IPR011992 EF-hand-like_dom
     IPR002048 EF_hand_Ca-bd
     IPR018248 EF-hand
     IPR018247 EF_Hand_1_Ca_BS

    Graphical View of Domain Structure for InterPro Entry P84074

    ProtoNet protein and cluster: P84074

    1 Blocks protein family: IPB001125 Recoverin family signature

    UniProtKB/Swiss-Prot: HPCA_HUMAN, P84074
    Similarity: Belongs to the recoverin family
    Similarity: Contains 4 EF-hand domains


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: HPCA_HUMAN, P84074
    Function: May be involved in the calcium-dependent regulation of rhodopsin phosphorylation. Binds two calcium ions

         Genatlas biochemistry entry for HPCA:
    hippocalcin,23kDa,calcium binding protein expressed in hippocampus

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    hsa-miR-4283 hsa-miR-361-3p hsa-miR-1321 hsa-miR-3133
    SwitchGear 3'UTR luciferase reporter plasmidHPCA 3' UTR sequence
    Inhib. RNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HPCA

    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003779actin binding IDA11964161
    GO:0005509calcium ion binding NAS8387172
    GO:0005515protein binding ----


    HPCA for ontologies           About GeneDecksing


    Animal Models:
         Mouse knock-out Hpcatm1Toho for HPCA
         3 MGI mutant phenotypes (inferred from 1 allele(MGI details for Hpca):
     cellular  homeostasis/metabolism  nervous system 

    HPCA for phenotypes           About GeneDecksing


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for HPCA

    STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

    5/10 Interacting proteins for HPCA (P840743 ENSP000003625664) via UniProtKB, MINT, STRING, and/or I2D (see all 10)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NMT1P304193, ENSP000002589604I2D: score=1 STRING: ENSP00000258960
    MAP3K10Q027793, ENSP000002530554I2D: score=1 STRING: ENSP00000253055
    NAIPQ130753I2D: score=2 
    AP2B1P630103I2D: score=1 
    KCNMA1Q127913I2D: score=1 
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0048839inner ear development IEA--


    HPCA for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    HPCA for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for HPCA

    1 HMDB Compound for HPCA    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--
    1 Novoseek chemical compound relationship for HPCA gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 42.9 21 10899114 (4), 14638856 (3), 19686238 (2), 9872924 (1) (see all 12)

    Search CenterWatch for drugs/clinical trials and news about HPCA 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for HPCA gene: 
    NM_002143.2  

    Unigene Cluster for HPCA:

    Hippocalcin
    Hs.632391  [show with all ESTs]
    Unigene Representative Sequence: NM_002143
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000470166 ENST00000480118 ENST00000373467(uc001bwh.3) ENST00000459874
    ENST00000470896

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    hsa-miR-4283 hsa-miR-361-3p hsa-miR-1321 hsa-miR-3133
    SwitchGear 3'UTR luciferase reporter plasmidHPCA 3' UTR sequence
    Inhib. RNA
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    OriGene shRNA RFP: HPCA
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    Additional cDNA sequence: 

    AK313907.1 BC001777.1 BT019750.1 BT019789.1 D16593.1 

    6 DOTS entries:

    DT.40268615  DT.211888  DT.95333184  DT.75138179  DT.97817634  DT.97838250 

    24/101 AceView cDNA sequences (see all 101):

    AI815633 BM703729 AI572446 F08502 BC001777 BE254310 BM695772 AW593961 
    NM_002143 BU193377 BM470677 AI968637 AI633788 BM727278 AI018743 AI936796 
    BU730131 BF056926 BQ187927 BI553473 AA324075 BE255400 F04939 BG708013 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for HPCA    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b · 5c
    SP1:                                                      
    SP2:              -     -     -                           
    SP3:              -     -                                 
    SP4:                          -                           


    ECgene alternative splicing isoforms for HPCA

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    HPCA expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CAGCCAAATG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See HPCA Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for HPCA

    SOURCE GeneReport for Unigene cluster: Hs.632391

    UniProtKB/Swiss-Prot: HPCA_HUMAN, P84074
    Tissue specificity: Brain specific

        SABiosciences Expression via Pathway-Focused PCR Array including HPCA: 
              Huntington's Disease in human mouse rat

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    In Situ
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for HPCA gene from 3/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves HPCA1 hippocalcin 86.28(n)
    94.79(a)
      419668  XM_001233528.2  XP_001233529.1 
    zebrafish
    (Danio rerio)
    Actinopterygii hpca1 hippocalcin 82.38(n)
    93.78(a)
      393696  NM_200723.1  NP_957017.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Nca3 negative regulation of phosphorylation
    calcium ion binding less
    85(a)
    (best of 2)
      3 76D8   --


    ENSEMBL Gene Tree for HPCA (if available)
    TreeFam Gene Tree for HPCA (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for HPCA gene
    KCNIP32  KCNIP42  GUCA1A2  KCNIP12  RCVRN2  HPCAL12  GUCA1B2  NCALD2  
    KCNIP22  HPCAL42  NCS12  VSNL12  GUCA1C2  
    16 SIMAP similar genes for HPCA using alignment to 2 protein entries:     HPCA_HUMAN (see all proteins):
    DKFZp781K1922    HPCAL1    NCALD    VSNL1    HPCAL4    NCS1
    RCV1    RCVRN    KCNIP4    KCNIP3    GUCA1A    KCNIP2
    KCNIP1    GUCA1B    DKFZp686E1183    GUCA1C

    HPCA for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/142 NCBI SNPs in HPCA are shown (see all 142    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs764644361,2
    F,--31465231(+) GAACTG/AGGGAA 1 -- int11Minor allele frequency- A:0.08WA 118
    rs800268071,2
    F,--31465846(+) CCTGCG/AAAGTA 1 -- int11Minor allele frequency- A:0.03WA 118
    rs577675401,2
    --31466215(+) CTGGCC/TGCAGA 1 -- int10--------
    rs795783561,2
    F,--31466434(+) GAGGAG/CCTGTG 1 -- int11Minor allele frequency- C:0.03WA 118
    rs726540521,2
    C,--31467557(+) GGAGCG/TGGTCC 1 -- int12Minor allele frequency- T:0.08NA 122
    rs802220361,2
    C,F,--31467595(+) AGGGGG/TTTCTT 1 -- int11Minor allele frequency- T:0.03WA 118
    rs9422431,2
    C,F,H,--31468774(-) CTTACA/GTATAC 1 -- int113Minor allele frequency- G:0.02NA EA MN NS WA 1138
    rs115787781,2
    C,H--31468985(+) CAAACC/TTAGGT 1 -- int10--------
    rs118117021,2
    C,F,H,--33350183(+) AAAGAA/GGAGGA 1 -- us2k1 trp321Minor allele frequency- G:0.38NS EA NA WA CSA 2347
    rs1420812311,2
    --33350476(+) GAAGCC/TGGTGT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for HPCA (33351595 - 33364042 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 2 variations for HPCA
         2 CNVs: 48311 48310

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    HPCA for disorders           About GeneDecksing

    OMIM gene information: 142622    OMIM disorders: --

    4 diseases for HPCA:    About MalaCards
    neuronitis    ascending cholangitis    huntington's disease    parkinson's disease

    1 disease from the University of Copenhagen DISEASES database for HPCA:
    Ascending cholangitis
    Human Genome Epidemiology (HuGE) Navigator: HPCA (23 documents)

    Export disorders for HPCA gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for HPCA gene, integrated from 9 sources (see all 36):
    (articles sorted by number of sources associating them with HPCA)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Genomic structure and chromosomal mapping of the human and mouse hippocalcin genes. (PubMed id 9931466)1, 2, 3, 9 Masaki T.... Takamatsu K. (1998)
    2. Molecular cloning of human hippocalcin cDNA and chromosomal mapping of its gene. (PubMed id 8166736)1, 2, 3, 9 Takamatsu K.... Noguchi T. (1994)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    4. Diminished hippocalcin expression in Huntington's dis ease brain does not account for increased striatal neuron vulnerability as asse ssed in primary neurons. (PubMed id 19686238)1, 9 Rudinskiy N....Luthi-Carter R. (2009)
    5. NAIP interacts with hippocalcin and protects neurons against calcium-induced cell death through caspase-3-dependent and -independent pathways. (PubMed id 10899114)1, 9 Mercer E.A....Lindholm D. (2000)
    6. Mixed lineage kinase 2 and hippocalcin are localized in Lewy bodies of Parkinson's disease. (PubMed id 19332348)1, 9 Nagao M. and Hayashi H. (2009)
    7. Differential use of myristoyl groups on neuronal calcium sensor proteins as a determinant of spatio-temporal aspects of Ca2+ signal transduction. (PubMed id 11836243)1, 9 O'Callaghan D.W....Burgoyne R.D. (2002)
    8. High-affinity interaction of the N-terminal myristoylation motif of the neuronal calcium sensor protein hippocalcin with phosphatidylinositol 4,5-bisphosphate. (PubMed id 16053445)1, 9 O'Callaghan D.W....Burgoyne R.D. (2005)
    9. Dynamics and calcium sensitivity of the Ca2+/myristoyl switch protein hippocalcin in living cells. (PubMed id 14638856)1, 9 O'Callaghan D.W....Burgoyne R.D. (2003)
    10. A novel acetylation cycle of transcription co-activato r Yes-associated protein that is downstream of Hippo pathway is triggered in res ponse to SN2 alkylating agents. (PubMed id 22544757)1 Hata S....Nishina H. (2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 3208 HGNC: 5144 AceView: HPCA Ensembl:ENSG00000121905 euGenes: HUgn3208
    ECgene: HPCA H-InvDB: HPCA

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for HPCA Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
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    Patent Information for HPCA gene:
    Search GeneIP for patents involving HPCA

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