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    SLC35F5 solute carrier family 35 member F5 [ Homo sapiens (human) ]

    Gene ID: 80255, updated on 27-Nov-2024

    Summary

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    Official Symbol
    SLC35F5provided by HGNC
    Official Full Name
    solute carrier family 35 member F5provided by HGNC
    Primary source
    HGNC:HGNC:23617
    See related
    Ensembl:ENSG00000115084 MIM:619997; AllianceGenome:HGNC:23617
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    Predicted to be located in membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 12.0), adrenal (RPKM 11.9) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SLC35F5 in Genome Data Viewer
    Location:
    2q14.1
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (113702682..113756642, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (114127410..114181350, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (114464286..114514219, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2936 Neighboring gene ACR pseudogene 1 Neighboring gene RNA, U6 small nuclear 744, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16422 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16423 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16424 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16425 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:114466525-114467155 Neighboring gene microRNA 4782 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11886 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16426 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16427 Neighboring gene uncharacterized LOC105373570 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:114575557-114576058 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:114576059-114576558 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr2:114588353-114589552 Neighboring gene ACTR3 antisense RNA 1 Neighboring gene small nucleolar RNA U13

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. A human skeletal muscle interactome centered on proteins involved in muscular dystrophies: LGMD interactome. Blandin G, et al. Skelet Muscle, 2013 Feb 15. PMID 23414517, Free PMC Article
    2. Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins. Rozenblatt-Rosen O, et al. Nature, 2012 Jul 26. PMID 22810586, Free PMC Article
    3. ER-export and ARFRP1/AP-1-dependent delivery of SARS-CoV-2 Envelope to lysosomes controls late stages of viral replication. Pearson GJ, et al. Sci Adv, 2024 Apr 5. PMID 38569033, Free PMC Article
    4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. Clark HF, et al. Genome Res, 2003 Oct. PMID 12975309, Free PMC Article
    5. Multilevel proteomics reveals host perturbations by SARS-CoV-2 and SARS-CoV. Stukalov A, et al. Nature, 2021 Jun. PMID 33845483

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ22004, FLJ36584

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    solute carrier family 35 member F5
    Names
    HCV NS5A-transactivated protein 3
    hepatitis C virus NS5A-transactivated protein 3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001330314.2 → NP_001317243.1  solute carrier family 35 member F5 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3)
      Source sequence(s)
      AC017074
      Consensus CDS
      CCDS82503.1
      UniProtKB/TrEMBL
      B2RDY0, B8ZZY4
      Conserved Domains (2) summary
      COG0697
      Location:239 → 464
      RhaT; Permease of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism, Amino acid transport and metabolism, General function prediction only]
      pfam00892
      Location:323 → 464
      EamA; EamA-like transporter family

    2. NM_001330315.2 → NP_001317244.1  solute carrier family 35 member F5 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4)
      Source sequence(s)
      AC017074
      UniProtKB/TrEMBL
      B2RDY0
      Conserved Domains (2) summary
      COG0697
      Location:245 → 483
      RhaT; Permease of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism, Amino acid transport and metabolism, General function prediction only]
      pfam00892
      Location:342 → 483
      EamA; EamA-like transporter family

    3. NM_001330316.2 → NP_001317245.1  solute carrier family 35 member F5 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5)
      Source sequence(s)
      AC017074
      UniProtKB/TrEMBL
      B2RDY0

    4. NM_001330317.2 → NP_001317246.1  solute carrier family 35 member F5 isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and 5' coding region, lacks multiple 3' coding exons, and extends past a splice site used in the variant 1, resulting in a different 3' coding region and 3' UTR. The encoded isoform (5) has distinct N- and C-termini compared to isoform 1.
      Source sequence(s)
      AC017074, AK025657, BC050096
      Consensus CDS
      CCDS86878.1
      UniProtKB/TrEMBL
      B8ZZV6
      Related
      ENSP00000386991.1, ENST00000409342.1

    5. NM_025181.5 → NP_079457.2  solute carrier family 35 member F5 isoform 1

      See identical proteins and their annotated locations for NP_079457.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AC017074, AY358620
      Consensus CDS
      CCDS2119.1
      UniProtKB/Swiss-Prot
      Q8WV83, Q9H6P8, Q9H7D8
      UniProtKB/TrEMBL
      B2RDY0
      Related
      ENSP00000245680.2, ENST00000245680.7
      Conserved Domains (1) summary
      COG0697
      Location:242 → 470
      RhaT; Permease of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism, Amino acid transport and metabolism, General function prediction only]

    RNA

    1. NR_104470.3 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site at the 5' end and lacks a segment in the 3' region. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC017074, BC050096

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      113702682..113756642 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047445926.1 → XP_047301882.1  solute carrier family 35 member F5 isoform X4

    2. XM_047445923.1 → XP_047301879.1  solute carrier family 35 member F5 isoform X1

      UniProtKB/Swiss-Prot
      Q8WV83, Q9H6P8, Q9H7D8

    3. XM_017005027.2 → XP_016860516.1  solute carrier family 35 member F5 isoform X5

      UniProtKB/TrEMBL
      B2RDY0
      Conserved Domains (2) summary
      COG0697
      Location:245 → 483
      RhaT; Permease of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism, Amino acid transport and metabolism, General function prediction only]
      pfam00892
      Location:342 → 483
      EamA; EamA-like transporter family

    4. XM_047445924.1 → XP_047301880.1  solute carrier family 35 member F5 isoform X2

      UniProtKB/TrEMBL
      B8ZZY4
      Related
      ENSP00000386754.1, ENST00000409106.5

    5. XM_047445925.1 → XP_047301881.1  solute carrier family 35 member F5 isoform X3

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      114127410..114181350 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054344049.1 → XP_054200024.1  solute carrier family 35 member F5 isoform X1

      UniProtKB/Swiss-Prot
      Q8WV83, Q9H6P8, Q9H7D8

    2. XM_054344052.1 → XP_054200027.1  solute carrier family 35 member F5 isoform X5

    3. XM_054344050.1 → XP_054200025.1  solute carrier family 35 member F5 isoform X2

      UniProtKB/TrEMBL
      B8ZZY4

    4. XM_054344051.1 → XP_054200026.1  solute carrier family 35 member F5 isoform X3

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8WV83.1 GenPept UniProtKB/Swiss-Prot:Q8WV83

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    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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