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

SH3D21 Gene

protein-coding   GIFtS: 38
GCID: GC01P036772

SH3 domain containing 21

(Previous name: chromosome 1 open reading frame 113 )
(Previous symbol: C1orf113)
  Search for SH3D21
in
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SH3D21    

Aliases
for SH3D21 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
SH3 Domain Containing 211 2
C1orf1131 2 3
FLJ229381
Chromosome 1 Open Reading Frame 1131
SH3 Domain-Containing Protein 212
SH3 Domain-Containing Protein C1orf1132

External Ids:    HGNC: 262361   Entrez Gene: 797292   Ensembl: ENSG000002141937   UniProtKB: A4FU493   

Export aliases for SH3D21 gene to outside databases


Summaries
for SH3D21 gene

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

Genomic Views
for SH3D21 gene

(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_000001.10  NC_018912.1  NT_032977.9  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for SH3D21
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SH3D21

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SH3D21


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

Entrez Gene cytogenetic band: 1p34.3   Ensembl cytogenetic band:  1p34.3   HGNC cytogenetic band: 1p34.3

SH3D21 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SH3D21 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P036772:  view genomic region     (about GC identifiers)

Start:
 36,771,988 bp from pter      End:
 36,790,484 bp from pter
Size:
 18,497 bases      Orientation:
 plus strand

Proteins
for SH3D21 gene

(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: SH321_HUMAN, A4FU49 (See protein sequence)
Recommended Name: SH3 domain-containing protein 21  
Size: 640 amino acids; 70519 Da
Sequence caution: Sequence=AAI01677.1; Type=Erroneous translation; Note=Wrong choice of CDS; Sequence=AAI01679.1;
Type=Erroneous translation; Note=Wrong choice of CDS; Sequence=BAB15504.1; Type=Erroneous initiation; Note=Translation
N-terminally extended; Sequence=BAB71191.1; Type=Erroneous translation; Note=Wrong choice of CDS; Sequence=CAH71860.2;
Type=Erroneous gene model prediction; Sequence=EAX07375.1; Type=Erroneous gene model prediction; Sequence=EAX07376.1;
Type=Erroneous gene model prediction;
Secondary accessions: B4DLI6 D3DPS6 J3KQM5 Q5VTK7 Q86XZ6 Q8N445 Q96DN4 Q9H5W5
Alternative splicing: 5 isoforms:  A4FU49-1   A4FU49-3   A4FU49-4   A4FU49-5   A4FU49-6   (No experimental confirmation available. May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay)

Explore the universe of human proteins at neXtProt for SH3D21: NX_A4FU49

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_A4FU49

    • SH3D21 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001156002.1  NP_078952.4  

    ENSEMBL proteins: 
     ENSP00000362232   ENSP00000421294   ENSP00000425484   ENSP00000403476   ENSP00000408613  
     ENSP00000321936  

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    Uscn Proteins for SH3D21


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    Uscn ELISAs and CLIAs for SH3D21

    Protein Domains /
    Families
    for SH3D21 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SH3D21 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR013315 Spectrin_alpha_SH3
     IPR011511 SH3_2
     IPR001452 SH3_domain

    Graphical View of Domain Structure for InterPro Entry A4FU49

    ProtoNet protein and cluster: A4FU49

    UniProtKB/Swiss-Prot: SH321_HUMAN, A4FU49
    Similarity: Contains 1 SH3 domain


    Function
    for SH3D21 gene

    (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
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    Inhib. RNA
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    Gene Editing
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    Clone
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    In Situ Assay
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    Pathways & Interactions
    for SH3D21 gene

    (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 SH3D21

    STRING Interaction Network Preview (showing 5 interactants - click image to see 9)

    5/11 Interacting proteins for SH3D21 (A4FU493 ENSP000003219364) via UniProtKB, MINT, STRING, and/or I2D (see all 11)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    EGFRP005333, ENSP000002754934I2D: score=1 STRING: ENSP00000275493
    ARHGEF10LQ9HCE63I2D: score=1 
    GOLGB1Q147893I2D: score=1 
    AK2ENSP000003469214STRING: ENSP00000346921
    ARTNENSP000003919984STRING: ENSP00000391998
    About this table

    Drugs & Compounds
    for SH3D21 gene

    (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 SH3D21
    Search CenterWatch for drugs/clinical trials and news about SH3D21 / SH321 

    Transcripts
    for SH3D21 gene

    (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 SH3D21 gene (2 alternative transcripts): 
    NM_001162530.1  NM_024676.4  

    Unigene Cluster for SH3D21:

    SH3 domain containing 21
    Hs.524496  [show with all ESTs]
    Unigene Representative Sequence: AK056459
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000373139 ENST00000505871(uc009vuz.1) ENST00000480549(uc010oic.1)
    ENST00000496636 ENST00000508854 ENST00000474766 ENST00000453908(uc010oia.1)
    ENST00000426732 ENST00000312808(uc010oib.1)

    miRNA
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    hsa-miR-576-3p hsa-miR-588 hsa-miR-455-5p hsa-miR-548s
    SwitchGear 3'UTR luciferase reporter plasmid: SH3D21 3' UTR sequence
    Inhib. RNA
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    Clone
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    Primer
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    Additional cDNA sequence: 

    AK026591.1 AK056459.1 AK297015.1 BC036763.1 BC048273.1 BC101676.1 BC101678.1 

    7 DOTS entries:

    DT.97839374  DT.100688771  DT.99954074  DT.97839373  DT.40309189  DT.95197404  DT.97826872 

    24/78 AceView cDNA sequences (see all 78):

    AI660231 AK026591 AI274105 BM834826 BF448949 BC036763 AA252262 AY240960 
    AA426190 AI304726 BQ653081 BC048273 BI496816 BX094136 BM831728 CA396557 
    T82280 AI202419 AW301083 BM127775 BE645971 AI467782 BM127821 AI304355 

    GeneLoc Exon Structure


    Expression
    for SH3D21 gene

    (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

    SH3D21 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TGGCTCCCAT

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image
    See SH3D21 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SH3D21

    SOURCE GeneReport for Unigene cluster: Hs.524496
        SABiosciences Custom PCR Arrays for SH3D21
    Primer
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    In Situ
    Assay Products:     
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    Orthologs
    for SH3D21 gene

    (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 SH3D21 gene from 4/18 species (see all 18)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    lizard
    (Anolis carolinensis)    		 Reptilia SH3D216
    		 --
    		 22(a)
    		 1 ↔ 1
    		 GL343481.1(18969-40633)
    zebrafish
    (Danio rerio)    		 Actinopterygii zgc:1232851 zgc:123285 48.34(n)
    40.88(a)    		   641492  NM_001037432.2  NP_001032509.2 
    fruit fly
    (Drosophila melanogaster)    		 Insecta cindr6
    		 CIN85 and CD2AP orthologue
    		 14(a)
    		 1 → many
    		 3R(26634338-26652722)
    worm
    (Caenorhabditis elegans)    		 Secernentea Y44E3A.46
    		 Protein Y44E3A.4
    		 17(a)
    		 1 → many
    		 I(3320923-3330675)


    ENSEMBL Gene Tree for SH3D21 (if available)
    TreeFam Gene Tree for SH3D21 (if available) 

    Paralogs
    for SH3D21 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SH3D21 gene
    CD2AP2  SH3KBP12  
    3 SIMAP similar genes for SH3D21 using alignment to 3 protein entries:     SH321_HUMAN (see all proteins):
    SH3GL2    ARHGEF7    ITSN1

    SH3D21 for paralogs           About GeneDecksing



    Genomic Variants
    for SH3D21 gene

    (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

    10/260 NCBI SNPs in SH3D21 are shown (see all 260)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 1 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1408725851,2
    		--36771541(+) TGCTGA/GTACAA 2 -- us2k10--------
    rs1446889201,2
    		--36771586(+) AGCGGC/TTGCTA 2 -- us2k10--------
    rs1389522131,2
    		--36772517(+) CGCAAC/GGGCGG 2 -- int1 us2k10--------
    rs1878879591,2
    		--36772712(+) TCCCCA/CAGCTC 2 -- int1 ut510--------
    rs18754281,2
    		C,F,H,--36772868(+) GAGATC/GGTGGA 3 I M ut51 mis115Minor allele frequency- G:0.22NA NS EA WA CSA 739
    rs1380161971,2
    		C,--36773075(+) GACTC-/TTGGGGC 2 -- int10--------
    rs353434371,2
    		C,F,H,--36773405(+) AGCCCT/GGGTCC 4 /P syn120Minor allele frequency- G:0.43NS EA NA CSA WA EU 2955
    rs1156842971,2
    		--36773415(+) CCCAGC/TGGCCT 4 R W mis11Minor allele frequency- T:0.01WA 118
    rs1931418501,2
    		--36773543(+) ACAGCC/GCTCCA 4 P A mis10--------
    rs29952291,2
    		C,F,H,--36773590(-) GGAGTG/AGGGGA 2 -- int111Minor allele frequency- A:0.11NS NA WA CSA 1007

    HapMap Linkage Disequilibrium report for SH3D21 (36771988 - 36790484 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SH3D21: --

    SABiosciences Cancer Mutation PCR Assays
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    Disorders / Diseases
    for SH3D21 gene

    (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
    		   --

    Publications
    for SH3D21 gene

    (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 SH3D21 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SH3D21)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
    4. Improved titanium dioxide enrichment of phosphopeptides from HeLa cells and high confident phosphopeptide identification by cross- validation of MS/MS and MS/MS/MS spectra. (PubMed id 17924679)1 Yu L.-R.... Veenstra T.D. (2007)
    5. 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)
    6. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
    7. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (2004)
    8. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. (PubMed id 10737800)1 Dias Neto E....Simpson A.J.G. (2000)

    External Searches for SH3D21 gene

    (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)

    Genome Databases showing SH3D21 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 79729 HGNC: 26236 AceView: FLJ22938 Ensembl:ENSG00000214193 euGenes: HUgn79729
    ECgene: SH3D21 H-InvDB: SH3D21

    Other Databases showing SH3D21 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SH3D21 gene

    (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 SH3D21 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SH3D21 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for SH3D21 gene:
    Search GeneIP for patents involving SH3D21

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



    Products
    for SH3D21 gene

    (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),
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    About This Section

     
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