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

Gene ID: 54847, updated on 10-Mar-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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Location:
3q13.2
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (113532555..113637111)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (116253714..116358275)
105.20220307 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 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

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. Preparation and characterization of the extracellular domain of human Sid-1. Pratt AJ, et al. PLoS One, 2012. PMID 22509261, Free PMC Article
  2. 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
  3. Homo sapiens systemic RNA interference-defective-1 transmembrane family member 1 (SIDT1) protein mediates contact-dependent small RNA transfer and microRNA-21-driven chemoresistance. Elhassan MO, et al. J Biol Chem, 2012 Feb 17. PMID 22174421, Free PMC Article
  4. A novel family of mammalian transmembrane proteins involved in cholesterol transport. Méndez-Acevedo KM, et al. Sci Rep, 2017 Aug 7. PMID 28785058, Free PMC Article
  5. Genome-wide association scan of dental caries in the permanent dentition. Wang X, et al. BMC Oral Health, 2012 Dec 21. PMID 23259602, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. Human SIDT1 mediates dsRNA uptake via its phospholipase activity.
    Title: Human SIDT1 mediates dsRNA uptake via its phospholipase activity.
  3. 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.
  4. characterization of Sid-1 extracellular domain
    Title: Preparation and characterization of the extracellular domain of human Sid-1.
  5. 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.
  6. 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)

Genotypes

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, ENST00000393830.4
    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_2023_10

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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