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Aliases for SIDT1 Gene

Aliases for SIDT1 Gene

  • SID1 Transmembrane Family Member 1 2 3 5
  • SID1 Transmembrane Family, Member 1 2
  • SID-1 3
  • SID1 3

External Ids for SIDT1 Gene

Previous GeneCards Identifiers for SIDT1 Gene

  • GC03P114734
  • GC03P113251
  • GC03P110626

Summaries for SIDT1 Gene

Entrez Gene Summary for SIDT1 Gene

  • 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]

GeneCards Summary for SIDT1 Gene

SIDT1 (SID1 Transmembrane Family Member 1) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include RNA transmembrane transporter activity. An important paralog of this gene is SIDT2.

UniProtKB/Swiss-Prot for SIDT1 Gene

  • In vitro binds long double-stranded RNA (dsRNA) (500 and 700 base pairs), but not dsRNA shorter than 300 bp. Not involved in RNA autophagy, a process in which RNA is directly imported into lysosomes in an ATP-dependent manner, and degraded.

Additional gene information for SIDT1 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SIDT1 Gene

Genomics for SIDT1 Gene

GeneHancer (GH) Regulatory Elements for SIDT1 Gene

Promoters and enhancers for SIDT1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I113531 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 586.7 +0.9 869 4.3 PKNOX1 SMAD1 SIN3A YBX1 BMI1 ZNF335 GLIS2 ZNF366 ZNF143 ATF7 SIDT1 CFAP44 CCDC191 GC03P113536
GH03I113694 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 9.1 +164.9 164877 4.8 HDGF PKNOX1 ARID4B NEUROD1 SIN3A DMAP1 YBX1 ZBTB7B YY1 E2F8 USF3 NAA50 GTPBP8 NEPRO QTRT2 SIDT1 ATP6V1A GC03P113719
GH03I113625 Promoter/Enhancer 1.2 Ensembl ENCODE 12 +94.0 94015 1.8 CTCF MAX CEBPG ZNF48 ZSCAN9 RAD21 RFX5 ZKSCAN1 ZNF143 SMC3 SIDT1-AS1 SIDT1 USF3 SPICE1 ATP6V1A RN7SL767P GC03M113598
GH03I113557 Enhancer 0.7 ENCODE 20 +25.4 25363 0.7 CTCF FOXA2 SAP130 RAD21 RARA ZNF7 TEAD3 CTBP1 FOSL2 FOS SIDT1 SIDT1-AS1 SPICE1 CFAP44 GC03P113536
GH03I113286 Enhancer 1.2 Ensembl ENCODE dbSUPER 10.7 -245.1 -245087 2.4 FOXA2 BATF DNMT3B RAD21 ZNF335 EGR1 ZNF143 FOS BCLAF1 ZNF654 GC03M113287 SIDT1 CFAP44 BOC GC03M113216
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SIDT1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SIDT1 gene promoter:

Genomic Locations for SIDT1 Gene

Genomic Locations for SIDT1 Gene
chr3:113,532,296-113,632,097
(GRCh38/hg38)
Size:
99,802 bases
Orientation:
Plus strand
chr3:113,251,143-113,348,425
(GRCh37/hg19)

Genomic View for SIDT1 Gene

Genes around SIDT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SIDT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SIDT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SIDT1 Gene

Proteins for SIDT1 Gene

  • Protein details for SIDT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NXL6-SIDT1_HUMAN
    Recommended name:
    SID1 transmembrane family member 1
    Protein Accession:
    Q9NXL6
    Secondary Accessions:
    • Q17RR4

    Protein attributes for SIDT1 Gene

    Size:
    827 amino acids
    Molecular mass:
    93839 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SIDT1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SIDT1 Gene

Post-translational modifications for SIDT1 Gene

  • Glycosylation at posLast=5757, isoforms=267, isoforms=283, posLast=136136, isoforms=2282, isoforms=2471, isoforms=2567, and posLast=764764

Antibody Products

  • Abcam antibodies for SIDT1
  • Santa Cruz Biotechnology (SCBT) Antibodies for SIDT1

No data available for DME Specific Peptides for SIDT1 Gene

Domains & Families for SIDT1 Gene

Gene Families for SIDT1 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Transporters

Protein Domains for SIDT1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SIDT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NXL6

UniProtKB/Swiss-Prot:

SIDT1_HUMAN :
  • Belongs to the SID1 family.
Family:
  • Belongs to the SID1 family.
genes like me logo Genes that share domains with SIDT1: view

Function for SIDT1 Gene

Molecular function for SIDT1 Gene

UniProtKB/Swiss-Prot Function:
In vitro binds long double-stranded RNA (dsRNA) (500 and 700 base pairs), but not dsRNA shorter than 300 bp. Not involved in RNA autophagy, a process in which RNA is directly imported into lysosomes in an ATP-dependent manner, and degraded.

Phenotypes From GWAS Catalog for SIDT1 Gene

Gene Ontology (GO) - Molecular Function for SIDT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0051033 RNA transmembrane transporter activity IEA --
genes like me logo Genes that share ontologies with SIDT1: view
genes like me logo Genes that share phenotypes with SIDT1: view

Animal Models for SIDT1 Gene

MGI Knock Outs for SIDT1:

Animal Model Products

CRISPR Products

miRNA for SIDT1 Gene

miRTarBase miRNAs that target SIDT1

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SIDT1 Gene

Localization for SIDT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SIDT1 Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SIDT1 gene
Compartment Confidence
plasma membrane 3
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for SIDT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SIDT1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SIDT1 Gene

Pathways & Interactions for SIDT1 Gene

SuperPathways for SIDT1 Gene

No Data Available

Interacting Proteins for SIDT1 Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000264852%0d%0a9606.ENSP00000442349%0d%0a9606.ENSP00000250003%0d%0a
Selected Interacting proteins: Q9NXL6-SIDT1_HUMAN ENSP00000264852 for SIDT1 Gene via IID STRING

Gene Ontology (GO) - Biological Process for SIDT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0033227 dsRNA transport IEA --
genes like me logo Genes that share ontologies with SIDT1: view

No data available for Pathways by source and SIGNOR curated interactions for SIDT1 Gene

Drugs & Compounds for SIDT1 Gene

No Compound Related Data Available

Transcripts for SIDT1 Gene

Unigene Clusters for SIDT1 Gene

SID1 transmembrane family, member 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SIDT1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^
SP1: - - - -
SP2:
SP3: -
SP4: -
SP5: -
SP6:

ExUns: 22 ^ 23 ^ 24 ^ 25a · 25b ^ 26a · 26b
SP1: -
SP2:
SP3:
SP4:
SP5:
SP6:

Relevant External Links for SIDT1 Gene

GeneLoc Exon Structure for
SIDT1
ECgene alternative splicing isoforms for
SIDT1

Expression for SIDT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SIDT1 Gene

Protein differential expression in normal tissues from HIPED for SIDT1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (56.1) and Breast (10.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SIDT1 Gene



Protein tissue co-expression partners for SIDT1 Gene

NURSA nuclear receptor signaling pathways regulating expression of SIDT1 Gene:

SIDT1

SOURCE GeneReport for Unigene cluster for SIDT1 Gene:

Hs.591291

Evidence on tissue expression from TISSUES for SIDT1 Gene

  • Intestine(4.2)
  • Nervous system(2.8)
genes like me logo Genes that share expression patterns with SIDT1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SIDT1 Gene

Orthologs for SIDT1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SIDT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SIDT1 33 34
  • 99.31 (n)
dog
(Canis familiaris)
Mammalia SIDT1 33 34
  • 89.74 (n)
cow
(Bos Taurus)
Mammalia SIDT1 33 34
  • 89.02 (n)
oppossum
(Monodelphis domestica)
Mammalia SIDT1 34
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sidt1 33 16 34
  • 87.39 (n)
rat
(Rattus norvegicus)
Mammalia Sidt1 33
  • 87.16 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 82 (a)
OneToMany
-- 34
  • 75 (a)
OneToMany
-- 34
  • 52 (a)
OneToMany
chicken
(Gallus gallus)
Aves SIDT1 33 34
  • 77.74 (n)
lizard
(Anolis carolinensis)
Reptilia SIDT1 34
  • 75 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sidt1 33
  • 70.24 (n)
worm
(Caenorhabditis elegans)
Secernentea chup-1 34
  • 34 (a)
ManyToMany
sid-1 34
  • 22 (a)
ManyToMany
Species where no ortholog for SIDT1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • zebrafish (Danio rerio)

Evolution for SIDT1 Gene

ENSEMBL:
Gene Tree for SIDT1 (if available)
TreeFam:
Gene Tree for SIDT1 (if available)

Paralogs for SIDT1 Gene

Paralogs for SIDT1 Gene

(1) SIMAP similar genes for SIDT1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SIDT1: view

Variants for SIDT1 Gene

Sequence variations from dbSNP and Humsavar for SIDT1 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs531258462 likely-benign, Long QT syndrome 113,623,530(+) A/G coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1000000030 -- 113,534,208(+) A/T genic_upstream_transcript_variant, intron_variant
rs1000052448 -- 113,607,865(+) G/A intron_variant
rs1000065940 -- 113,535,666(+) A/T genic_upstream_transcript_variant, intron_variant
rs1000111601 -- 113,614,011(+) C/G/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SIDT1 Gene

Variant ID Type Subtype PubMed ID
esv2265706 CNV deletion 18987734
esv3597441 CNV loss 21293372
nsv1013506 CNV gain 25217958
nsv524086 CNV loss 19592680

Variation tolerance for SIDT1 Gene

Residual Variation Intolerance Score: 86.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.75; 83.19% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SIDT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SIDT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SIDT1 Gene

Disorders for SIDT1 Gene

Additional Disease Information for SIDT1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SIDT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SIDT1 Gene

Publications for SIDT1 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  2. RNA interference: a mammalian SID-1 homologue enhances siRNA uptake and gene silencing efficacy in human cells. (PMID: 15850781) Duxbury MS … Whang EE (Biochemical and biophysical research communications 2005) 3 22 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array. (PMID: 23535732) Eeles RA … Easton DF (Nature genetics 2013) 3 58
  5. Homo sapiens systemic RNA interference-defective-1 transmembrane family member 1 (SIDT1) protein mediates contact-dependent small RNA transfer and microRNA-21-driven chemoresistance. (PMID: 22174421) Elhassan MO … Duxbury MS (The Journal of biological chemistry 2012) 3 58

Products for SIDT1 Gene

Sources for SIDT1 Gene

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