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

SIDT2 Gene

protein-coding   GIFtS: 44
GCID: GC11P117049

SID1 Transmembrane Family, Member 2

  Search for SIDT2
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
SID1 Transmembrane Family, Member 21 2
SID1 Transmembrane Family Member 22

External Ids:    HGNC: 242721   Entrez Gene: 510922   Ensembl: ENSG000001495777   UniProtKB: Q8NBJ93   

Export aliases for SIDT2 gene to outside databases

Previous GC identifers: GC11P116554 GC11P112982


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

GeneCards Summary for SIDT2 Gene: 
SIDT2 (SID1 transmembrane family, member 2) is a protein-coding gene. GO annotations related to this gene include RNA transmembrane transporter activity. An important paralog of this gene is SIDT1.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000011.9  NT_033899.8  NC_018922.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SIDT2 gene promoter:
         STAT5B   TBP   AML1a   AP-1   Sp1   HFH-1   CUTL1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SIDT2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SIDT2


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

Entrez Gene cytogenetic band: 11q23.3   Ensembl cytogenetic band:  11q23.3   HGNC cytogenetic band: 11q23.3

SIDT2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SIDT2 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P117049:  view genomic region     (about GC identifiers)

Start:
117,049,449 bp from pter      End:
117,068,161 bp from pter
Size:
18,713 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SIDT2_HUMAN, Q8NBJ9 (See protein sequence)
Recommended Name: SID1 transmembrane family member 2 precursor  
Size: 832 amino acids; 94454 Da
Subcellular location: Lysosome membrane; Multi-pass membrane protein
Sequence caution: Sequence=BAC11427.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=BAC11641.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: Q8NBY7 Q9Y357
Alternative splicing: 2 isoforms:  Q8NBJ9-1   Q8NBJ9-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SIDT2: NX_Q8NBJ9

Explore proteomics data for SIDT2 at MOPED 

Post-translational modifications:

  • UniProtKB: Glycosylated (By similarity)
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q8NBJ9

  • SIDT2 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SIDT2 Protein Expression
    REFSEQ proteins: NP_001035545.1  
    ENSEMBL proteins: 
     ENSP00000314023   ENSP00000431176   ENSP00000278951   ENSP00000436983   ENSP00000435004  
     ENSP00000435890   ENSP00000432432   ENSP00000399635  

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    Cloud-Clone Corp. Proteins for SIDT2 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005765lysosomal membrane IDA17897319
    GO:0016021integral to membrane IEA--

    SIDT2 for ontologies           About GeneDecksing



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    Cloud-Clone Corp. CLIAs for SIDT2


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR025958 SID1_TM_fam

    Graphical View of Domain Structure for InterPro Entry Q8NBJ9

    ProtoNet protein and cluster: Q8NBJ9

    UniProtKB/Swiss-Prot: SIDT2_HUMAN, Q8NBJ9
    Similarity: Belongs to the SID1 family


    SIDT2 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         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--
         
    SIDT2 for ontologies           About GeneDecksing


    Phenotypes:
         1 MGI phenotypic allele for Sidt2 (no phenotypes)

    SIDT2 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Sidt2tm1Lex for SIDT2

       inGenious Targeting Laboratory - Custom generated mouse model solutions for SIDT2 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for SIDT2

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SIDT2 
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    Inhib. RNA
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                         Customized lentivirus expression plasmids for stable overexpression of SIDT2 

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SIDT2


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SIDT2

    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--

    SIDT2 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 SIDT2

    Search CenterWatch for drugs/clinical trials and news about SIDT2

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SIDT2 gene (2 alternative transcripts): 
    NM_015996.1  NM_001040455.1  

    Unigene Cluster for SIDT2:

    SID1 transmembrane family, member 2
    Hs.712144  [show with all ESTs]
    Unigene Representative Sequence: AY358442
    18 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000324225(uc001pqh.1 uc001pqi.1) ENST00000532960 ENST00000525339
    ENST00000278951(uc010rxe.1 uc001pqg.2) ENST00000524842 ENST00000531353
    ENST00000528397 ENST00000530948 ENST00000531255 ENST00000529441 ENST00000526813
    ENST00000527654 ENST00000524988 ENST00000529484 ENST00000525065 ENST00000525478
    ENST00000532062 ENST00000431081
    miRNA
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    8/48 QIAGEN miScript miRNA Assays for microRNAs that regulate SIDT2 (see all 48):
    hsa-miR-3194-5p hsa-miR-376b hsa-miR-15a hsa-miR-29a hsa-miR-200a hsa-miR-30d hsa-miR-488 hsa-miR-449a
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Browse for Gene Knock-down Tools from EMD Millipore
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SIDT2
    Sirion Biotech Customized lentivirus for stable overexpression of SIDT2 
                         Customized lentivirus expression plasmids for stable overexpression of SIDT2 
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    Additional mRNA sequence: 

    AK075137.1 AK075471.1 AK292501.1 AK292974.1 AK301501.1 AK303023.1 AY358442.1 BC114522.1 
    BC114959.1 BX648437.1 KC109742.1 

    23 DOTS entries:

    DT.115375  DT.95272303  DT.91743666  DT.120753306  DT.40223819  DT.97793001  DT.120753256  DT.100782253 
    DT.208404  DT.100782250  DT.120753330  DT.70101825  DT.75100683  DT.100782247  DT.86859364  DT.100025853 
    DT.95076993  DT.95238619  DT.120753097  DT.91992889  DT.95313619  DT.97829369  DT.99988716 

    24/889 AceView cDNA sequences (see all 889):

    AA360168 BU628758 AY358442 BU074279 BU543380 BM928681 CA421269 BG110652 
    BE673549 BQ008129 CA423369 CN484754 BQ447157 CA407176 BF222699 CN481421 
    AI244809 R45883 BQ717546 BM552971 BU855466 CF131075 AA709057 C01027 

    GeneLoc Exon Structure

    5/13 Alternative Splicing Database (ASD) splice patterns (SP) for SIDT2 (see all 13)    About this scheme

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

    ExUns: 17b ^ 18a · 18b ^ 19a · 19b ^ 20a · 20b ^ 21a · 21b · 21c ^ 22 ^ 23 ^ 24a · 24b ^ 25 ^ 26a · 26b ^ 27 ^ 28a · 28b · 28c
    SP1:  -     -                                                                       -                 -                           
    SP2:  -     -                                                                       -                 -                           
    SP3:                                                                                                                              
    SP4:                                                                                                                              
    SP5:                                                                                -                                             


    ECgene alternative splicing isoforms for SIDT2

    (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

    SIDT2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTATGGTTGC
    SIDT2 Expression
    About this image


    See SIDT2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SIDT2

    SOURCE GeneReport for Unigene cluster: Hs.712144
        SABiosciences Custom PCR Arrays for SIDT2
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SIDT2

    (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 SIDT2 gene from 6/13 species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sidt21 , 5 SID1 transmembrane family, member 21, 5 89.82(n)1
    95.43(a)1
      9 (25.36 cM)5
    2145971  NM_172257.31  NP_758461.11 
     459378575 
    chicken
    (Gallus gallus)
    Aves SIDT21 SID1 transmembrane family, member 2 80.07(n)
    84.37(a)
      770233  XM_001233565.2  XP_001233566.2 
    lizard
    (Anolis carolinensis)
    Reptilia SIDT26
    Uncharacterized protein
    84(a)
    1 ↔ 1
    GL343472.1(641662-661668)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.146902 Xenopus laevis transcribed sequence with moderate similarity more 77.31(n)    BX851842.1 
    zebrafish
    (Danio rerio)
    Actinopterygii wufc73a072 Transcribed sequence with weak similarity to protein more 78.62(n)    57071904 
    worm
    (Caenorhabditis elegans)
    Secernentea tag-1301 Protein TAG-130 46.69(n)
    39.03(a)
      181125  NM_077088.3  NP_509489.1 


    ENSEMBL Gene Tree for SIDT2 (if available)
    TreeFam Gene Tree for SIDT2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SIDT2 gene
    SIDT12  
    1 SIMAP similar gene for SIDT2 using alignment to 11 protein entries:     SIDT2_HUMAN (see all proteins):
    SIDT1

    SIDT2 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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

    10/550 SNPs in SIDT2 are shown (see all 550)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs803538691,2
    C,F--117048122(+) TCAAAG/AATAAC 1 -- us2k12Minor allele frequency- A:0.03WA NA 238
    rs802969471,2
    F--117048127(+) GATAAC/GTACTG 1 -- us2k11Minor allele frequency- G:0.09EA 120
    rs1423838551,2
    C--117048182(+) CTAAAC/TGTTTA 1 -- us2k10--------
    rs1465270871,2
    --117048191(+) TAGTAC/TAATTT 1 -- us2k10--------
    rs1910791201,2
    --117048221(+) TGTCTA/GTATGC 1 -- us2k10--------
    rs1826271981,2
    --117048303(+) TGGAGG/TGCAGG 1 -- us2k10--------
    rs1176805851,2
    F--117048367(+) TGCTTC/TAGCCT 1 -- us2k11Minor allele frequency- T:0.04NA 120
    rs1479125511,2
    --117048389(+) GGGATG/TACAGG 1 -- us2k10--------
    rs1489750711,2
    --117048391(+) GATTAC/TAGGCA 1 -- us2k10--------
    rs107901771,2
    C,F,A,H--117048417(+) CACTAG/ATTTTG 1 -- us2k116Minor allele frequency- A:0.49NS EA NA WA CSA 789

    HapMap Linkage Disequilibrium report for SIDT2 (117049449 - 117068161 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for SIDT2:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv524270CNV Loss19592680
    nsv518908CNV Loss19592680
    nsv7223OTHER Inversion18451855

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    SIDT2 for disorders           About MalaCards

    SIDT2 for disorders           About GeneDecksing

    Genetic Association Database (GAD): SIDT2
    Human Genome Epidemiology (HuGE) Navigator: SIDT2 (4 documents)

    Export disorders for SIDT2 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)
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    PubMed articles for SIDT2 gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with SIDT2)
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    1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2, 3 Clark H.F.... Gray A.M. (2003)
    2. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PubMed id 10810093)1, 2, 3 Lai C.H....Lin W. (2000)
    3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (2010)
    4. Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (2010)
    5. Integral and associated lysosomal membrane proteins. (PubMed id 17897319)1, 2 Schroeder B.... Hasilik A. (2007)
    6. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    7. Signal sequence and keyword trap in silico for selection of full- length human cDNAs encoding secretion or membrane proteins from oligo- capped cDNA libraries. (PubMed id 16303743)1, 2 Otsuki T....Isogai T. (2005)
    8. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    9. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)1, 2 Zhang Z. and Henzel W.J. (2004)
    10. Gene-centric association signals for lipids and apoli poproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 51092 HGNC: 24272 AceView: TAGLNandSIDT2 Ensembl:ENSG00000149577 euGenes: HUgn51092
    ECgene: SIDT2 H-InvDB: SIDT2

    (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 SIDT2 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 SIDT2 gene:
    Search GeneIP for patents involving SIDT2

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



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