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    SIDT1 SID1 transmembrane family member 1 [ Homo sapiens (human) ]

    Gene ID: 54847, updated on 10-Dec-2024

    Summary

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    Official Symbol
    SIDT1provided by HGNC
    Official Full Name
    SID1 transmembrane family member 1provided by HGNC
    Primary source
    HGNC:HGNC:25967
    See related
    Ensembl:ENSG00000072858 MIM:606816; AllianceGenome:HGNC:25967
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SID1; SID-1
    Summary
    The protein encoded by this gene belongs to SID1 family of transmembrane dsRNA-gated channels. Family members transport dsRNA into cells and are required for systemic RNA interference. [provided by RefSeq, May 2017]
    Expression
    Broad expression in lymph node (RPKM 4.1), brain (RPKM 3.6) and 19 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SIDT1 in Genome Data Viewer
    Location:
    3q13.2
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (113532555..113637111)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (116253714..116358275)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (113251402..113348422)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene SPICE1-CFAP44 readthrough (NMD candidate) Neighboring gene cilia and flagella associated protein 44 Neighboring gene CFAP44 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:113176937-113177646 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:113177647-113178356 Neighboring gene microRNA 8076 Neighboring gene spindle and centriole associated protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20252 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20253 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20254 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20256 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20255 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20257 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20258 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14606 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20260 Neighboring gene SIDT1 antisense RNA 1 Neighboring gene uncharacterized LOC124909410 Neighboring gene microRNA 4446 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14607 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:113356851-113357351 Neighboring gene RNA, 7SL, cytoplasmic 767, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14608 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14609 Neighboring gene upstream transcription factor family member 3 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:113463940-113464676 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:113464677-113465412 Neighboring gene N-alpha-acetyltransferase 50, NatE catalytic subunit

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Cryo-EM analysis reveals human SID-1 transmembrane family member 1 dynamics underlying lipid hydrolytic activity. Hirano Y, et al. Commun Biol, 2024 May 29. PMID 38811802, Free PMC Article
    2. Characterization of N-glycosylation and its functional role in SIDT1-Mediated RNA uptake. Yang T, et al. J Biol Chem, 2024 Feb. PMID 38237680, Free PMC Article
    3. Human SIDT1 mediates dsRNA uptake via its phospholipase activity. Sun CR, et al. Cell Res, 2024 Jan. PMID 37932444,
    4. RNA interference: a mammalian SID-1 homologue enhances siRNA uptake and gene silencing efficacy in human cells. Duxbury MS, et al. Biochem Biophys Res Commun, 2005 Jun 3. PMID 15850781
    5. Preparation and characterization of the extracellular domain of human Sid-1. Pratt AJ, et al. PLoS One, 2012. PMID 22509261, Free PMC Article

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Structure of the human systemic RNAi defective transmembrane protein 1 (hSIDT1) reveals the conformational flexibility of its lipid binding domain.
      Title: Structure of the human systemic RNAi defective transmembrane protein 1 (hSIDT1) reveals the conformational flexibility of its lipid binding domain.
    2. Cryo-EM analysis reveals human SID-1 transmembrane family member 1 dynamics underlying lipid hydrolytic activity.
      Title: Cryo-EM analysis reveals human SID-1 transmembrane family member 1 dynamics underlying lipid hydrolytic activity.
    3. Characterization of N-glycosylation and its functional role in SIDT1-Mediated RNA uptake.
      Title: Characterization of N-glycosylation and its functional role in SIDT1-Mediated RNA uptake.
    4. Human SIDT1 mediates dsRNA uptake via its phospholipase activity.
      Title: Human SIDT1 mediates dsRNA uptake via its phospholipase activity.
    5. In silico analysis identified SIDT1 and SIDT2 sharing identity and conserved cholesterol binding (CRAC) domains with C. elegans ChUP-1. Further evidence indicate that SIDT1 and SIDT2 not only do not transport RNA, but they are involved in cholesterol transport. Single point mutations in the CRAC domains of both proteins prevent FRET between SIDT1, SIDT2 and dehydroergosterol and alter cholesterol transport.
      Title: A novel family of mammalian transmembrane proteins involved in cholesterol transport.
    6. characterization of Sid-1 extracellular domain
      Title: Preparation and characterization of the extracellular domain of human Sid-1.
    7. SIDT1, facilitates rapid, contact-dependent, bidirectional small RNA transfer between human cells, resulting in target-specific non-cell-autonomous RNAi
      Title: Homo sapiens systemic RNA interference-defective-1 transmembrane family member 1 (SIDT1) protein mediates contact-dependent small RNA transfer and microRNA-21-driven chemoresistance.
    8. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    Submit: New GeneRIF Correction

    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

    EBI GWAS Catalog

    Description
    Genome-wide association scan of dental caries in the permanent dentition.
    EBI GWAS Catalog
    Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array.
    EBI GWAS Catalog

    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

    • FLJ20174, B830021E24Rik

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA transmembrane transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cholesterol binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables double-stranded RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in lysosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    SID1 transmembrane family member 1

    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.

    Genomic

    1. NG_054720.2 RefSeqGene

      Range
      5002..102022
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001308350.2 → NP_001295279.1  SID1 transmembrane family member 1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001295279.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AC055740, AC112128, AI004220, BC117222
      Consensus CDS
      CCDS77790.1
      UniProtKB/Swiss-Prot
      Q9NXL6
      Related
      ENSP00000377416.4, ENST00000393830.5
      Conserved Domains (1) summary
      pfam13965
      Location:187 → 811
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    2. NM_001322294.2 → NP_001309223.1  SID1 transmembrane family member 1 isoform 3 precursor

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220
      Conserved Domains (1) summary
      pfam13965
      Location:187 → 812
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    3. NM_001322295.2 → NP_001309224.1  SID1 transmembrane family member 1 isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220
      Conserved Domains (1) summary
      pfam13965
      Location:187 → 783
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    4. NM_001322296.2 → NP_001309225.1  SID1 transmembrane family member 1 isoform 5 precursor

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220
      Conserved Domains (1) summary
      pfam13965
      Location:187 → 749
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    5. NM_001322297.2 → NP_001309226.1  SID1 transmembrane family member 1 isoform 6

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220
      Conserved Domains (1) summary
      pfam13965
      Location:36 → 660
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    6. NM_001322298.2 → NP_001309227.1  SID1 transmembrane family member 1 isoform 7

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220
      Conserved Domains (1) summary
      pfam13965
      Location:68 → 630
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    7. NM_001322299.2 → NP_001309228.1  SID1 transmembrane family member 1 isoform 8

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220, BC143778
      Conserved Domains (1) summary
      pfam13965
      Location:2 → 559
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    8. NM_001322300.2 → NP_001309229.1  SID1 transmembrane family member 1 isoform 9

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220
      Conserved Domains (1) summary
      pfam13965
      Location:12 → 384
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    9. NM_017699.3 → NP_060169.2  SID1 transmembrane family member 1 isoform 2 precursor

      See identical proteins and their annotated locations for NP_060169.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) encodes isoform 2.
      Source sequence(s)
      AI004220, AK000181, BE839090, BG484269, DA217300, DA337075, DB217586
      Consensus CDS
      CCDS2974.1
      UniProtKB/Swiss-Prot
      Q17RR4, Q9NXL6
      Related
      ENSP00000264852.4, ENST00000264852.9
      Conserved Domains (1) summary
      pfam13965
      Location:184 → 806
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    RNA

    1. NR_136280.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220

    2. NR_136281.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220

    3. NR_136282.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220, BC143776

    4. NR_136283.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220

    5. NR_136284.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220

    6. NR_136285.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC055740, AC112128, AI004220

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      113532555..113637111
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047448376.1 → XP_047304332.1  SID1 transmembrane family member 1 isoform X2

    2. XM_011512941.4 → XP_011511243.1  SID1 transmembrane family member 1 isoform X5

      Conserved Domains (1) summary
      pfam13965
      Location:187 → 774
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    3. XM_011512939.4 → XP_011511241.1  SID1 transmembrane family member 1 isoform X1

      Conserved Domains (1) summary
      pfam13965
      Location:187 → 807
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    4. XM_047448379.1 → XP_047304335.1  SID1 transmembrane family member 1 isoform X6

    5. XM_047448380.1 → XP_047304336.1  SID1 transmembrane family member 1 isoform X7

    6. XM_047448377.1 → XP_047304333.1  SID1 transmembrane family member 1 isoform X3

    7. XM_047448383.1 → XP_047304339.1  SID1 transmembrane family member 1 isoform X10

    8. XM_047448378.1 → XP_047304334.1  SID1 transmembrane family member 1 isoform X4

    9. XM_047448384.1 → XP_047304340.1  SID1 transmembrane family member 1 isoform X11

    10. XM_047448381.1 → XP_047304337.1  SID1 transmembrane family member 1 isoform X8

    11. XM_047448382.1 → XP_047304338.1  SID1 transmembrane family member 1 isoform X9

    12. XM_047448385.1 → XP_047304341.1  SID1 transmembrane family member 1 isoform X12

    13. XM_047448387.1 → XP_047304343.1  SID1 transmembrane family member 1 isoform X16

    14. XM_017006666.2 → XP_016862155.1  SID1 transmembrane family member 1 isoform X13

    15. XM_017006667.3 → XP_016862156.1  SID1 transmembrane family member 1 isoform X14

    16. XM_047448386.1 → XP_047304342.1  SID1 transmembrane family member 1 isoform X15

    17. XM_017006668.3 → XP_016862157.1  SID1 transmembrane family member 1 isoform X17

      Conserved Domains (1) summary
      pfam13965
      Location:12 → 384
      SID-1_RNA_chan; dsRNA-gated channel SID-1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      116253714..116358275
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054346970.1 → XP_054202945.1  SID1 transmembrane family member 1 isoform X2

    2. XM_054346973.1 → XP_054202948.1  SID1 transmembrane family member 1 isoform X5

    3. XM_054346969.1 → XP_054202944.1  SID1 transmembrane family member 1 isoform X1

    4. XM_054346974.1 → XP_054202949.1  SID1 transmembrane family member 1 isoform X6

    5. XM_054346975.1 → XP_054202950.1  SID1 transmembrane family member 1 isoform X7

    6. XM_054346971.1 → XP_054202946.1  SID1 transmembrane family member 1 isoform X3

    7. XM_054346978.1 → XP_054202953.1  SID1 transmembrane family member 1 isoform X10

    8. XM_054346972.1 → XP_054202947.1  SID1 transmembrane family member 1 isoform X4

    9. XM_054346979.1 → XP_054202954.1  SID1 transmembrane family member 1 isoform X11

    10. XM_054346976.1 → XP_054202951.1  SID1 transmembrane family member 1 isoform X8

    11. XM_054346977.1 → XP_054202952.1  SID1 transmembrane family member 1 isoform X9

    12. XM_054346980.1 → XP_054202955.1  SID1 transmembrane family member 1 isoform X12

    13. XM_054346984.1 → XP_054202959.1  SID1 transmembrane family member 1 isoform X16

    14. XM_054346981.1 → XP_054202956.1  SID1 transmembrane family member 1 isoform X13

    15. XM_054346982.1 → XP_054202957.1  SID1 transmembrane family member 1 isoform X14

    16. XM_054346983.1 → XP_054202958.1  SID1 transmembrane family member 1 isoform X15

    17. XM_054346985.1 → XP_054202960.1  SID1 transmembrane family member 1 isoform X17

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9NXL6.2 GenPept UniProtKB/Swiss-Prot:Q9NXL6

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