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

SIDT1 Gene

protein-coding   GIFtS: 44
GCID: GC03P113251

SID1 transmembrane family, member 1

  Search for SIDT1
in our new
 Human Malady Compendium 
Biological research products
for SIDT1
    

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

Aliases
SID1 Transmembrane Family, Member 11 2
SID-11 2
FLJ201741
B830021E24Rik2
SID12
SID1 Transmembrane Family Member 12

External Ids:    HGNC: 259671   Entrez Gene: 548472   Ensembl: ENSG000000728587   OMIM: 6068165   UniProtKB: Q9NXL63   

Export aliases for SIDT1 gene to outside databases

Previous GC identifers: GC03P114734 GC03P110626


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

  --

(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_000003.11  NC_018914.1  NT_005612.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SIDT1 gene promoter:
         RORalpha1   TBP   C/EBPbeta   POU2F1   AML1a   POU2F1a   HTF   C/EBPalpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSIDT1 promoter sequence
   Search SABiosciences Chromatin IP Primers for SIDT1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SIDT1


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

Entrez Gene cytogenetic band: 3q13.2   Ensembl cytogenetic band:  3q13.2   HGNC cytogenetic band: 3q13.31

SIDT1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SIDT1 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P113251:  view genomic region     (about GC identifiers)

Start:
113,251,143 bp from pter      End:
113,348,425 bp from pter
Size:
97,283 bases      Orientation:
plus 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: SIDT1_HUMAN, Q9NXL6 (See protein sequence)
Recommended Name: SID1 transmembrane family member 1 precursor  
Size: 827 amino acids; 93839 Da
Subcellular location: Membrane; Multi-pass membrane protein (Potential)
Secondary accessions: Q17RR4
Alternative splicing: 2 isoforms:  Q9NXL6-1   Q9NXL6-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SIDT1: NX_Q9NXL6

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9NXL6

  • SIDT1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_060169.2  
    ENSEMBL proteins: 
     ENSP00000264852   ENSP00000377416  

    Human Recombinant Protein Products: 
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    Uscn Proteins for SIDT1

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane IEA--


    SIDT1 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for SIDT1


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

    SIDT1 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR025958 SID1_TM_fam

    Graphical View of Domain Structure for InterPro Entry Q9NXL6

    ProtoNet protein and cluster: Q9NXL6

    UniProtKB/Swiss-Prot: SIDT1_HUMAN, Q9NXL6
    Similarity: Belongs to the SID1 family


    (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

    miRNA
    Products:
        
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SIDT1
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    hsa-miR-15a hsa-miR-29c hsa-miR-29a hsa-miR-449a hsa-miR-424 hsa-miR-542-3p hsa-miR-195 hsa-miR-15b
    SwitchGear 3'UTR luciferase reporter plasmidSIDT1 3' UTR sequence
    Inhib. RNA
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    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SIDT1 (see all 4)
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0051033RNA transmembrane transporter activity IEA--


    SIDT1 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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SIDT1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016246RNA interference IEA--
    GO:0033227dsRNA transport IEA--


    SIDT1 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 SIDT1
    Search CenterWatch for drugs/clinical trials and news about SIDT1 

    (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 SIDT1 gene: 
    NM_017699.2  

    Unigene Cluster for SIDT1:

    SID1 transmembrane family, member 1
    Hs.591291  [show with all ESTs]
    Unigene Representative Sequence: NM_017699
    12 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000264852(uc003eak.3 uc021xcn.1 uc011big.2 uc011bii.2)
    ENST00000491730 ENST00000483946 ENST00000488390 ENST00000480746 ENST00000468728
    ENST00000463226 ENST00000465803 ENST00000492863 ENST00000481891 ENST00000498152
    ENST00000393830(uc011bif.1 uc021xcq.1)

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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SIDT1
    8/18 QIAGEN miScript miRNA Assays for microRNAs that regulate SIDT1 (see all 18):
    hsa-miR-15a hsa-miR-29c hsa-miR-29a hsa-miR-449a hsa-miR-424 hsa-miR-542-3p hsa-miR-195 hsa-miR-15b
    SwitchGear 3'UTR luciferase reporter plasmidSIDT1 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SIDT1 (see all 4)
    OriGene shRNA RFP: SIDT1
    OriGene siRNA: SIDT1
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SIDT1
    Clone
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    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SIDT1 (see all 4)
    OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SIDT1
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SIDT1
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    Additional cDNA sequence: 

    AK295938.1 AK303385.1 BC117222.1 BC143776.1 BC143778.1 

    6 DOTS entries:

    DT.427797  DT.120921556  DT.120921570  DT.95365063  DT.91740728  DT.91863290 

    24/30 AceView cDNA sequences (see all 30):

    NM_017699 AI275725 BG661293 CF136238 BF590534 BE061660 AK000181 AA278917 
    AI287788 BF436981 BG403056 AV731066 CA487695 BX504328 BE748640 BM856233 
    CD521416 AI004220 H91646 BE061675 AW505388 BG484269 BE748094 T51446 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for SIDT1 (see all 6)    About this scheme

    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:              -                                                                                                                                             

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


    ECgene alternative splicing isoforms for SIDT1

    (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

    SIDT1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAAAAAACTT

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

    About this image
    See SIDT1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SIDT1

    SOURCE GeneReport for Unigene cluster: Hs.591291
        SABiosciences Custom PCR Arrays for SIDT1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SIDT1

    (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 SIDT1 gene from 5/17 species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sidt11 , 5 SID1 transmembrane family, member 11, 5 87.34(n)1
    91.66(a)1
      16 (28.57 cM)5
    3200071  NM_001159419.11  NP_001152891.11 
     442401805 
    chicken
    (Gallus gallus)
    Aves SIDT11 SID1 transmembrane family, member 1 77.75(n)
    83.44(a)
      418321  XM_416544.3  XP_416544.3 
    lizard
    (Anolis carolinensis)
    Reptilia SIDT16
    --
    79(a)
    1 ↔ 1
    GL343473.1(234211-309434)
    honey bee
    (Apis mellifera)
    Insecta --
    --
    45(a)
    1 → many
    GroupUn.12(135416-139649)
    worm
    (Caenorhabditis elegans)
    Secernentea tag-1306
    sid-16
    Systemic RNA interference defective protein 1
    33(a)
    19(a)
    many → 1
    possible ortholog
    X(8792107-8796041)
    V(5119955-5126901)


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SIDT1 gene
    SIDT22  
    1 SIMAP similar gene for SIDT1 using alignment to 2 protein entries:     SIDT1_HUMAN (see all proteins):
    SIDT2

    SIDT1 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

    10/1902 NCBI SNPs in SIDT1 are shown (see all 1902    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1396851021,2
    --113249278(+) ACACCA/GTAACA 1 -- us2k10--------
    rs1921714211,2
    --113249325(+) ACTTTC/GAAATA 1 -- us2k10--------
    rs796073201,2
    F,--113249371(+) GATCCT/CGAGAG 1 -- us2k11Minor allele frequency- C:0.09WA 118
    rs762409451,2
    --113249492(+) AAATGG/TCTTTA 1 -- us2k11Minor allele frequency- T:0.01EA 120
    rs1144625531,2
    C,--113249644(+) TATTAG/AGTTTA 1 -- us2k11Minor allele frequency- A:0.01NA 120
    rs798979211,2
    F,--113249829(+) GAACTC/TCATAA 1 -- us2k11Minor allele frequency- T:0.07EA 120
    rs1510920301,2
    --113249898(+) AAGTTA/TATGAA 1 -- us2k10--------
    rs1154981441,2
    C,--113249931(+) GGCACA/GGATAT 1 -- us2k10--------
    rs1827926881,2
    --113249940(+) ATTTTG/TAATAC 1 -- us2k10--------
    rs1142363051,2
    C,--113249943(+) TTGAAC/TACAAC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for SIDT1 (113251143 - 113348425 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for SIDT1
         1 Indel: 46273

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SIDT1
    DNA2.0 Custom Variant and Variant Library Synthesis for SIDT1

    (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

    SIDT1 for disorders           About MalaCards

    SIDT1 for disorders           About GeneDecksing

    OMIM gene information: 606816    OMIM disorders: --

    Human Genome Epidemiology (HuGE) Navigator: SIDT1 (1 document)

    Export disorders for SIDT1 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 SIDT1 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SIDT1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    2. RNA interference: a mammalian SID-1 homologue enhances siRNA uptake and gene silencing efficacy in human cells. (PubMed id 15850781)1, 9 Duxbury M.S....Whang E.E. (2005)
    3. Preparation and characterization of the extracellular domain of human Sid-1. (PubMed id 22509261)1 Pratt A.J....MacRae I.J. (2012)
    4. Homo sapiens systemic RNA interference-defective-1 tra nsmembrane family member 1 (SIDT1) protein mediates contact-dependent small RNA transfer and microRNA-21-driven chemoresistance. (PubMed id 22174421)1 Elhassan M.O....Duxbury M.S. (2012)
    5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
    6. The DNA sequence, annotation and analysis of human chromosome 3. (PubMed id 16641997)2 Muzny D.M....Gibbs R.A. (2006)
    7. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    10. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. (PubMed id 10737800)1 Dias Neto E....Simpson A.J.G. (2000)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 54847 HGNC: 25967 AceView: SIDT1 Ensembl:ENSG00000072858 euGenes: HUgn54847
    ECgene: SIDT1 H-InvDB: SIDT1

    (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 SIDT1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SIDT1 gene:
    Search GeneIP for patents involving SIDT1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences),
    In Situ Hybridization Assays from
    Advanced Cell Diagnostics
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