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SAMD10 Gene

protein-coding   GIFtS: 41
GCID: GC20M062605

Sterile Alpha Motif Domain Containing 10

(Previous name: chromosome 20 open reading frame 136)
(Previous symbol: C20orf136)
  Search for SAMD10
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Sterile Alpha Motif Domain Containing 101 2     D930033N23Rik2
C20orf1361 2 3     dJ591C202
SAM Domain-Containing Protein 102 3     dJ591C20.72
Chromosome 20 Open Reading Frame 1361     Sterile Alpha Motif Domain-Containing Protein 102

External Ids:    HGNC: 161291   Entrez Gene: 1407002   Ensembl: ENSG000001305907   UniProtKB: Q9BYL13   

Export aliases for SAMD10 gene to outside databases

Previous GC identifers: GC20M062075 GC20M059340


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SAMD10 Gene:
SAMD10 (sterile alpha motif domain containing 10) is a protein-coding gene. An important paralog of this gene is SAMD12.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000020.11  NT_011362.11  NC_018931.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SAMD10 gene promoter:
         STAT1   p53   Brachyury   STAT1beta   HNF-4alpha2   Nkx2-5   STAT1alpha   HNF-4alpha1   PPAR-gamma1   HFH-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSAMD10 promoter sequence
   Search Chromatin IP Primers for SAMD10

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SAMD10


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

Entrez Gene cytogenetic band: 20q13.33   Ensembl cytogenetic band:  20q13.33   HGNC cytogenetic band: 20q13.33

SAMD10 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SAMD10 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M062605:  view genomic region     (about GC identifiers)

Start:
62,605,466 bp from pter      End:
62,611,361 bp from pter
Size:
5,896 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: SAM10_HUMAN, Q9BYL1 (See protein sequence)
Recommended Name: Sterile alpha motif domain-containing protein 10  
Size: 202 amino acids; 22770 Da

Explore the universe of human proteins at neXtProt for SAMD10: NX_Q9BYL1

Explore proteomics data for SAMD10 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SAMD10 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_542188.1  
    ENSEMBL proteins: 
     ENSP00000358902   ENSP00000404839  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    SAMD: Sterile alpha motif (SAM) domain containing

    3 InterPro protein domains:
     IPR013761 SAM/pointed
     IPR001660 SAM
     IPR011510 SAM_2

    Graphical View of Domain Structure for InterPro Entry Q9BYL1

    ProtoNet protein and cluster: Q9BYL1

    2 Blocks protein domains:
    IPB001660 Sterile alpha motif SAM
    IPB011510 Sterile alpha motif homology 2


    UniProtKB/Swiss-Prot: SAM10_HUMAN, Q9BYL1
    Similarity: Contains 1 SAM (sterile alpha motif) domain


    SAMD10 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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
    GO:0043565sequence-specific DNA binding ----
         
    SAMD10 for ontologies           About GeneDecksing


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    hsa-mir-124-3p (MIRT022405), hsa-mir-125b-5p (MIRT004985)

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    Selected qRT-PCR Assays for microRNAs that regulate SAMD10 (see all 22):
    hsa-miR-498 hsa-miR-125a-5p hsa-miR-3194-5p hsa-miR-128 hsa-miR-512-3p hsa-miR-125b hsa-miR-149 hsa-miR-29a*
    SwitchGear 3'UTR luciferase reporter plasmidSAMD10 3' UTR sequence
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus2
    cytosol1
    extracellular1
    mitochondrion1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ----

    SAMD10 for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SAMD10
    Interactions:

        Search GeneGlobe Interaction Network for SAMD10

    STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

    Selected Interacting proteins for SAMD10 (ENSP000003589024) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CNKSR2ENSP000003688244STRING: ENSP00000368824
    CNKSR1ENSP000003546094STRING: ENSP00000354609
    IPCEF1ENSP000003561894STRING: ENSP00000356189
    PLEKHA4ENSP000002632654STRING: ENSP00000263265
    PLEKHA5ENSP000002992754STRING: ENSP00000299275
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SAMD10 (SAM10)



    (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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for SAMD10 gene: 
    NM_080621.4  

    Unigene Cluster for SAMD10:

    Sterile alpha motif domain containing 10
    Hs.27189  [show with all ESTs]
    Unigene Representative Sequence: BC067362
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000369886(uc002yhm.2 uc002yhn.2) ENST00000498830 ENST00000478694
    ENST00000450107
    miRNA
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    hsa-miR-498 hsa-miR-125a-5p hsa-miR-3194-5p hsa-miR-128 hsa-miR-512-3p hsa-miR-125b hsa-miR-149 hsa-miR-29a*
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      QuantiFast Probe-based Assays in human, mouse, rat SAMD10

    Additional mRNA sequence: 

    BC041436.1 BC067362.1 

    5 DOTS entries:

    DT.100775448  DT.92068341  DT.92068340  DT.95163039  DT.97832303 

    Selected AceView cDNA sequences (see all 161):

    BM068760 AW276028 AW139581 NM_080621 BU526555 AW136926 BC041436 AA886921 
    AW628097 AA085380 BM761742 BI793221 AL834525 BQ102387 BM127148 BE858902 
    AB033022 AI567790 NM_020713 AW070726 BM126579 AI362088 AI866764 AI768920 

    GeneLoc Exon Structure


    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SAMD10 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGAAGTAAAG
    SAMD10 Expression
    About this image

    SAMD10 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SAMD10 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.27189
        Custom PCR Arrays for SAMD10
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAMD10

    (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)
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    This gene was present in the common ancestor of animals.

    Orthologs for SAMD10 gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Samd101 , 5 sterile alpha motif domain containing 101, 5 89.27(n)1
    92.08(a)1
      2 (103.67 cM)5
    2290111  NM_172676.21  NP_766264.21 
     1815952185 
    chicken
    (Gallus gallus)
    Aves SAMD101 sterile alpha motif domain containing 10 79.92(n)
    79.53(a)
      428153  XM_004947117.1  XP_004947174.1 
    lizard
    (Anolis carolinensis)
    Reptilia SAMD106
    sterile alpha motif domain containing 10
    61(a)
    1 ↔ 1
    4(155720198-155792078)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.143132 Xenopus laevis transcribed sequence with weak similarity more 71.73(n)    BX848353.1 
    zebrafish
    (Danio rerio)
    Actinopterygii samd10b1 sterile alpha motif domain containing 10b 70.76(n)
    66.67(a)
      100147927  XM_001922974.2  XP_001923009.2 
    fruit fly
    (Drosophila melanogaster)
    Insecta ave6
    aveugle
    31(a)
    1 → many
    2R(10640031-10640774)


    ENSEMBL Gene Tree for SAMD10 (if available)
    TreeFam Gene Tree for SAMD10 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SAMD10 gene
    SAMD122  
    1 SIMAP similar gene for SAMD10 using alignment to 2 protein entries:     SAM10_HUMAN (see all proteins):
    SAMD12

    SAMD10 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SAMD10 (see all 152)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1133741851,2
    C--62605023(+) TAAGA-/GAGAGACA
    GAGGGAGATTT
    GAGAG
    1 -- int11Minor allele frequency- GAGAGACAGAGGGAGATTT:0.50CSA 2
    rs1911769071,2
    --62605078(+) ACAGAC/GGCGGA 1 -- int10--------
    rs1836395761,2
    --62605106(+) CGCCCA/GAGTTC 1 -- int10--------
    rs1422908641,2
    --62605115(+) TCCCCC/GGGCAG 1 -- int10--------
    rs1421939661,2
    --62605287(+) TGGGCC/TGTCCC 1 -- int10--------
    rs60626001,2
    C--62605415(+) GCCCCC/ATGGTG 1 -- int11Minor allele frequency- A:0.00NA 2
    rs1883976211,2
    --62605462(+) AGCACC/TGCCAG 1 -- int10--------
    rs1926902451,2
    --62605547(+) AAGACA/GAGACA 1 -- ut310--------
    rs717675611,2
    C--62605665(+) CACAC-/AGGGGCA 1 -- ut310--------
    rs1112642341,2
    C--62605714(+) GGGAGC/TGGCCA 1 -- ut312Minor allele frequency- T:0.11CSA WA 120

    HapMap Linkage Disequilibrium report for SAMD10 (62605466 - 62611361 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for SAMD10 (see all 14):    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv509784CNV Insertion20534489
    dgv4656n71CNV Loss21882294
    dgv4653n71CNV Loss21882294
    nsv913190CNV Loss21882294
    nsv913287CNV Loss21882294
    nsv913270CNV Loss21882294
    dgv4654n71CNV Loss21882294
    dgv4657n71CNV Loss21882294
    nsv913269CNV Loss21882294
    nsv469773CNV Gain16826518

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing SAMD10
    DNA2.0 Custom Variant and Variant Library Synthesis for SAMD10

    (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.)
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      --

    (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 SAMD10 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SAMD10)
        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. (Genome Res. 2004)
    2. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)1, 2 Deloukas P....Rogers J. (Nature 2001)
    3. Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array. (PubMed id 23535732)1 Eeles R.A....Easton D.F. (Nat. Genet. 2013)
    4. Transcriptome analysis of human gastric cancer. (PubMed id 16341674)1 Oh J.H.... Kim N.S. (Mamm. Genome 2005)
    5. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 140700 HGNC: 16129 AceView: KIAA1196andSAMD10 Ensembl:ENSG00000130590 euGenes: HUgn140700
    ECgene: SAMD10 H-InvDB: SAMD10

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SAMD10 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SAMD10 gene:
    Search GeneIP for patents involving SAMD10

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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