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

NXF2B Gene

protein-coding   GIFtS: 43
GCID: GC0XM101615

nuclear RNA export factor 2B

 Explore 3 diseases affiliated with
NXF2B via our new
 Human Malady Compendium 
Biological research products
for NXF2B
    

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

Aliases
Nuclear RNA Export Factor 2B1 2     Nuclear RNA Export Factor 22
BA353J17.11     CT393
Cancer/Testis Antigen 392 3     TAPL-23
TAP-Like Protein 22 3     TAPL23

External Ids:    HGNC: 239841   Entrez Gene: 7283432   Ensembl: ENSG000001859457   UniProtKB: Q9GZY03   

Export aliases for NXF2B gene to outside databases

Previous GC identifer: GC0XM101503


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

UniProtKB/Swiss-Prot: NXF2_HUMAN, Q9GZY0
Function: Involved in the export of mRNA from the nucleus to the cytoplasm




(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_018934.1  NC_000023.10  NT_011651.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the NXF2B gene promoter:
         STAT1   AML1a   GCNF   STAT1beta   GATA-1   STAT1alpha   CP2   HSF2   GCNF-1   GCNF-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for NXF2B

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NXF2B


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

Entrez Gene cytogenetic band: Xq22.1   Ensembl cytogenetic band:  Xq22.1   HGNC cytogenetic band: Xq22

NXF2B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NXF2B gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM101615:  view genomic region     (about GC identifiers)

Start:
101,615,316 bp from pter      End:
101,726,732 bp from pter
Size:
111,417 bases      Orientation:
minus 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: NXF2_HUMAN, Q9GZY0 (See protein sequence)
Recommended Name: Nuclear RNA export factor 2  
Size: 626 amino acids; 71627 Da
Subunit: Interacts with NXT1, NXT2, E1B-AP5, the REF proteins and with nucleoporins, Nup62, Nup153 and Nup214
Subcellular location: Nucleus, nucleoplasm. Cytoplasm. Note=Localized in the nucleoplasm and at the nuclear envelope.
Shuttles between the nucleus and the cytoplasm
Sequence caution: Sequence=AAK31975.1; Type=Erroneous initiation; Sequence=BAA91154.1; Type=Erroneous initiation;
Sequence=CAB75659.1; Type=Miscellaneous discrepancy; Note=The sequence differs from that shown due to either intron
retention or a splicing event;
Secondary accessions: Q9BXU4 Q9NSS1 Q9NX66

Explore the universe of human proteins at neXtProt for NXF2B: NX_Q9GZY0

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9GZY0

  • NXF2B Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_001093156.1  
    ENSEMBL proteins: 
     ENSP00000361838   ENSP00000361835   ENSP00000361836   ENSP00000396447   ENSP00000413087  

    Human Recombinant Protein Products: 
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    Browse Proteins at Uscn

    Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ISS--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm ISS--
    GO:0015629actin cytoskeleton IDA--
    GO:0042272nuclear RNA export factor complex NAS11073998


    NXF2B for ontologies           About GeneDecksing



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    Browse ELISAs and CLIAs at Uscn


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

    NXF2B for domains           About GeneDecksing

    5/7 InterPro domains/families (see all 7):
     IPR002075 NTF2
     IPR015245 Tap_RNA-bd
     IPR005637 TAP_C_dom
     IPR001611 Leu-rich_rpt
     IPR012677 Nucleotide-bd_a/b_plait

    Graphical View of Domain Structure for InterPro Entry Q9GZY0

    ProtoNet protein and cluster: Q9GZY0

    2 Blocks protein families:
    IPB002075 Nuclear transport factor 2 (NTF2)
    IPB005637 TAP C-terminal domain


    UniProtKB/Swiss-Prot: NXF2_HUMAN, Q9GZY0
    Domain: The NTF2 domain heterodimerizes with NXT1 and NXT2. The formation of NXF1/NXT1 heterodimers is required for
    NXF2-mediated nuclear mRNA export
    Domain: The leucine-rich repeats and the NTF2-domain are essential for the export of mRNA from the nucleus
    Domain: The C-terminal fragment, containing the TAP domain (also called UBA-like domain) and part of the NTF2-like
    domain, named the NPC-binding domain, mediates direct interactions with nucleoporin-FG-repeats and is necessary and
    sufficient for localization of NXF2 to the nuclear rim
    Domain: The RNA-binding domain is a non-canonical RNP-type domain
    Similarity: Belongs to the NXF family
    Similarity: Contains 4 LRR (leucine-rich) repeats
    Similarity: Contains 1 NTF2 domain
    Similarity: Contains 1 RRM (RNA recognition motif) domain
    Similarity: Contains 1 TAP-C domain


    (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: NXF2_HUMAN, Q9GZY0
    Function: Involved in the export of mRNA from the nucleus to the cytoplasm

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    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003723RNA binding NAS11073998


    NXF2B for ontologies           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

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1mRNA surveillance pathway
    mRNA surveillance pathway1.00
    2Ribosome biogenesis in eukaryotes
    Ribosome biogenesis in eukaryotes1.00
    3RNA transport
    RNA transport1.00
    4Measles
    Influenza A0.35

    Pathway sources
    See GeneCards unified pathways
    Show all pathways



    4         Kegg Pathways  (Kegg details for NXF2B):
        Ribosome biogenesis in eukaryotes
    RNA transport
    mRNA surveillance pathway
    Influenza A


    NXF2B for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for NXF2B

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    5 Interacting proteins for NXF2B (Q9GZY03 ENSP000003618354) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NUP153P497903I2D: score=1 
    NUP214P356583I2D: score=1 
    NUP62P371983I2D: score=1 
    NXF2ENSP000003618434STRING: ENSP00000361843
    NXF3ENSP000003785044STRING: ENSP00000378504
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006406mRNA export from nucleus NAS11073998
    GO:0007275multicellular organismal development ISS--
    GO:0050658RNA transport ISS--


    NXF2B 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for NXF2B
    Search CenterWatch for drugs/clinical trials and news about NXF2B / NXF2 

    (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 NXF2B gene: 
    NM_001099686.2  

    Unigene Cluster for NXF2B:

    Nuclear RNA export factor 2B
    Hs.648337  [show with all ESTs]
    Unigene Representative Sequence: BX647232
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000372752(uc004eiz.4) ENST00000372749(uc004eiy.4) ENST00000372750
    ENST00000489531 ENST00000457521(uc022cav.1 uc004ejb.4) ENST00000412230(uc010nob.1)


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      Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat NXF2B
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat NXF2B

    Additional cDNA sequence: 

    AF285596.1 AK000423.1 AK308255.1 BX647232.1 

    4 DOTS entries:

    DT.103434  DT.121307672  DT.95341451  DT.95367446 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for NXF2B    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22
    SP1:                                -                                                                                                                     
    SP2:                                -                                                                                                                     
    SP3:              -                 -                                                                                                                     
    SP4:                                                                                                                                                      


    ECgene alternative splicing isoforms for NXF2B

    (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

    NXF2B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

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

    About this image
    See NXF2B Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for NXF2B

    SOURCE GeneReport for Unigene cluster: Hs.648337

    UniProtKB/Swiss-Prot: NXF2_HUMAN, Q9GZY0
    Tissue specificity: Expressed almost exclusively in testis. Also expressed in several cancers

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NXF2B

    (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 NXF2B gene from 4/17 species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    50(a)
    1 → many
    GL343739.1(139249-168794)
    zebrafish
    (Danio rerio)
    Actinopterygii CU468164.26
    nxf16
    (see all 4)
    nuclear RNA export factor 1
    (see all 4)
    46(a)
    45(a)
    (see all 4)
    many ↔ many
    many ↔ many
    (see all 4)
    14(9002608-9013043)
    21(26058501-26071321)
    fruit fly
    (Drosophila melanogaster)
    Insecta sbr6
    Nxf36
    (see all 3)
    Nuclear export factor 3
    (see all 3)
    23(a)
    19(a)
    (see all 3)
    1 ↔ many
    possible ortholog
    (see all 3)
    X(10726785-10741125)
    3L(13958303-13965106)
    worm
    (Caenorhabditis elegans)
    Secernentea nxf-26
    nxf-16
    Nuclear RNA export factor 1
    25(a)
    24(a)
    possible ortholog
    possible ortholog
    V(14416100-14417814)
    V(14412390-14415777)


    ENSEMBL Gene Tree for NXF2B (if available)
    TreeFam Gene Tree for NXF2B (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for NXF2B gene
    NXF21 2  NXF12  NXF32  NXF52  
    5 SIMAP similar genes for NXF2B using alignment to 3 protein entries:     NXF2_HUMAN (see all proteins):
    NXF2    NXF5    NXF1    DKFZp667O0311    NXF3

    NXF2B 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

    10/148 NCBI SNPs in NXF2B are shown (see all 148    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1119238421,2
    C--91301721(+) AATAAA/GACTTC 1 -- int10--------
    rs5004791,2
    C,F--91301984(-) AGTGTC/TAGGCT 1 -- int14Minor allele frequency- T:0.33NA WA 6
    rs556531891,2
    C--91304507(-) ACAGGA/GGCAAA 1 -- int10--------
    rs1123559281,2
    C--91307610(+) TATATC/TTTATT 1 -- int10--------
    rs5400481,2
    C,--91308039(-) GAGTCT/CTCTGA 1 -- int14Minor allele frequency- C:0.00NA WA 6
    rs4933121,2
    C,F--91309183(+) gtcagC/Aaagat 1 -- int15Minor allele frequency- A:0.50NA WA 8
    rs4803661,2
    C--91309902(-) actctC/Tggcct 1 -- int12Minor allele frequency- T:0.33NA 3
    rs4998511,2
    C--91309908(+) AGAGTA/GAACTT 1 -- int12Minor allele frequency- G:0.00NA 3
    rs5548321,2
    C--91311327(+) AATACG/TGCCAC 1 -- int12Minor allele frequency- T:0.00NA 3
    rs558299961,2
    C--91311850(+) ATCAGA/GAGGTA 1 -- int10--------

    HapMap Linkage Disequilibrium report for NXF2B (101615316 - 101726732 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for NXF2B: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing NXF2B
    DNA2.0 Custom Variant and Variant Library Synthesis for NXF2B

    (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

    NXF2B for disorders           About GeneDecksing

    3 diseases for NXF2B:    About MalaCards
    pelizaeus-merzbacher disease    spermatocytoma    influenza

    2 diseases from the University of Copenhagen DISEASES database for NXF2B:
    Male infertility     Spermatocytoma

    Export disorders for NXF2B 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 NXF2B gene, integrated from 9 sources (see all 11):
    (articles sorted by number of sources associating them with NXF2B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification of a new cancer/testis gene family, CT47, among expressed multicopy genes on the human X chromosome. (PubMed id 16382448)1, 3 Chen Y.T....Jongeneel C.V. (2006)
    2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
    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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    5. Five new human cancer-germline genes identified among 12 genes expressed in spermatogonia. (PubMed id 12704671)1, 2 Loriot A.... De Smet C. (2003)
    6. NXF5, a novel member of the nuclear RNA export factor family, is lost in a male patient with a syndromic form of mental retardation. (PubMed id 11566096)1, 2 Jun L.... Froyen G. (2001)
    7. An abundance of X-linked genes expressed in spermatogonia. (PubMed id 11279525)1, 2 Wang P.J.... Page D.C. (2001)
    8. TAP (NXF1) belongs to a multigene family of putative RNA export factors with a conserved modular architecture. (PubMed id 11073998)1, 2 Herold A.... Izaurralde E. (2000)
    9. Identification of an NTF2-related factor that binds Ran-GTP and regulates nuclear protein export. (PubMed id 10567585)1, 2 Black B.E.... Paschal B.M. (1999)
    10. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 728343 HGNC: 23984 Ensembl:ENSG00000185945 euGenes: HUgn728343 ECgene: NXF2B Kegg: 728343
    H-InvDB: NXF2B

    (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 NXF2B Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for NXF2B gene:
    Search GeneIP for patents involving NXF2B

    GeneCards and IP:
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