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

STMN3 Gene

protein-coding   GIFtS: 51
GCID: GC20M062271

stathmin-like 3

 Explore 3 diseases affiliated with
STMN3 via our new
 Human Malady Compendium 
Biological research products
for STMN3
    

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

Aliases
Stathmin-Like 31 2
SCLIP1 2 3 5
SCG10-Like Protein2 3
SCG10-Like-Protein1
Stathmin-31

External Ids:    HGNC: 159261   Entrez Gene: 508612   Ensembl: ENSG000001974577   OMIM: 6083625   UniProtKB: Q9NZ723   

Export aliases for STMN3 gene to outside databases

Previous GC identifers: GC20M062148 GC20M062950 GC20M062998 GC20M062999 GC20M061741 GC20M059001


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

Entrez Gene summary for STMN3:
This gene encodes a protein which is a member of the stathmin protein family. Members of this protein family form a
complex with tubulins at a ratio of 2 tubulins for each stathmin protein. Microtubules require the ordered assembly of
alpha- and beta-tubulins, and formation of a complex with stathmin disrupts microtubule formation and function. A
pseudogene of this gene is located on chromosome 22. Alternative splicing results in multiple transcript variants.
(provided by RefSeq, Jan 2013)

UniProtKB/Swiss-Prot: STMN3_HUMAN, Q9NZ72
Function: Exhibits microtubule-destabilizing activity, which is antagonized by STAT3 (By similarity)

Gene Wiki entry for STMN3


(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_000020.10  NC_018931.1  NT_011333.6  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the STMN3 gene promoter:
         AP-1   ATF-2   NRSF form 1   NRSF form 2   ARP-1   c-Jun   NF-kappaB1   Ik-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSTMN3 promoter sequence
   Search SABiosciences Chromatin IP Primers for STMN3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat STMN3


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

Entrez Gene cytogenetic band: 20q13.3   Ensembl cytogenetic band:  20q13.33   HGNC cytogenetic band: 20q13.3

STMN3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
STMN3 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M062271:  view genomic region     (about GC identifiers)

Start:
62,271,061 bp from pter      End:
62,284,780 bp from pter
Size:
13,720 bases      Orientation:
minus 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: STMN3_HUMAN, Q9NZ72 (See protein sequence)
Recommended Name: Stathmin-3  
Size: 180 amino acids; 21017 Da
Subunit: Interacts with STAT3 (By similarity)
Subcellular location: Golgi apparatus. Cell projection, growth cone. Cell projection, axon
Secondary accessions: B3KSQ5 B7WP52 O75527 Q969Y4

Explore the universe of human proteins at neXtProt for STMN3: NX_Q9NZ72

Post-translational modifications:

  • N-terminal palmitoylation promotes specific anchoring to the cytosolic leaflet of Golgi membranes and subsequent
  • vesicular trafficking along dendrites and axons. Neuronal Stathmins are substrates for palmitoyltransferases ZDHHC3,
    ZDHHC7 and ZDHHC151
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9NZ72

  • STMN3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001263239.1  NP_056978.2  

    ENSEMBL proteins: 
     ENSP00000359070   ENSP00000439840  

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    ProSpec Recombinant Protein for STMN3
    Uscn Proteins for STMN3

    Gene Ontology (GO): 5/7 cellular component terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005625soluble fraction ----
    GO:0005737cytoplasm ISS--
    GO:0005794Golgi apparatus IEA--
    GO:0030424axon IEA--
    GO:0030426growth cone IEA--


    STMN3 for ontologies           About GeneDecksing



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

    STMN3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR000956 Stathmin_fam

    Graphical View of Domain Structure for InterPro Entry Q9NZ72

    ProtoNet protein and cluster: Q9NZ72

    1 Blocks protein family: IPB000956 Stathmin

    UniProtKB/Swiss-Prot: STMN3_HUMAN, Q9NZ72
    Similarity: Belongs to the stathmin family
    Similarity: Contains 1 SLD (stathmin-like) domain


    (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

    Function Summary:

         UniProtKB/Swiss-Prot: STMN3_HUMAN, Q9NZ72
    Function: Exhibits microtubule-destabilizing activity, which is antagonized by STAT3 (By similarity)

    miRNA
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    SwitchGear 3'UTR luciferase reporter plasmidSTMN3 3' UTR sequence
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    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
    GO:0019904protein domain specific binding ISS--


    STMN3 for ontologies           About GeneDecksing


    Animal Models:
         1 MGI phenotypic allele for Stmn3 (no phenotypes)

    STMN3 for phenotypes           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:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for STMN3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

    5/8 Interacting proteins for STMN3 (Q9NZ722, 3 ENSP000003590704) via UniProtKB, MINT, STRING, and/or I2D (see all 8)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SPCS2Q150052, 3, ENSP000002636724MINT-64586 I2D: score=4 STRING: ENSP00000263672
    TRPC5Q9UL623, ENSP000002628394I2D: score=1 STRING: ENSP00000262839
    STAT3P407633I2D: score=1 
    CDKN1BENSP000002288724STRING: ENSP00000228872
    UBQLN1ENSP000003655764STRING: ENSP00000365576
    About this table

    Gene Ontology (GO): 5/8 biological process terms (GO ID links to tree view) (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007399nervous system development TAS9603203
    GO:0031110regulation of microtubule polymerization or depolymerization IEA--
    GO:0031122cytoplasmic microtubule organization ISS--
    GO:0031175neuron projection development ISS--
    GO:0032314regulation of Rac GTPase activity ISS--


    STMN3 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 STMN3
    Search CenterWatch for drugs/clinical trials and news about STMN3 

    (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,
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    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 STMN3 gene (2 alternative transcripts): 
    NM_001276310.1  NM_015894.3  

    Unigene Cluster for STMN3:

    Stathmin-like 3
    Hs.639609  [show with all ESTs]
    Unigene Representative Sequence: AK094112
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000370053(uc002yfr.1 uc021wgd.1) ENST00000540534

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    8/12 QIAGEN miScript miRNA Assays for microRNAs that regulate STMN3 (see all 12):
    hsa-miR-125a-5p hsa-miR-330-5p hsa-miR-4305 hsa-miR-3126-5p hsa-miR-637 hsa-miR-320e hsa-miR-125b hsa-miR-1255a
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    Additional cDNA sequence: 

    AF069709.1 AK074860.1 AK094112.1 AK131326.1 AK298903.1 AK310010.1 BC009381.2 BC025234.1 
    BC032527.2 BC047671.1 BC056873.1 BC082248.1 

    24/37 DOTS entries (see all 37):

    DT.95221068  DT.91923680  DT.120824905  DT.100881763  DT.120825003  DT.100881781  DT.216374  DT.95167293 
    DT.97778886  DT.100881764  DT.92442515  DT.120825149  DT.100654203  DT.100881755  DT.100881782  DT.120825167 
    DT.95167292  DT.100653716  DT.100881751  DT.100799518  DT.100841540  DT.100881748  DT.100653719  DT.100830030 

    24/441 AceView cDNA sequences (see all 441):

    AF069710 BU145620 BM543191 AA937338 NM_015894 BX453174 BU173238 CR614165 
    BX355971 BQ688476 T33212 BU190772 CR604904 CR612260 BQ685353 BQ687549 
    AA746245 AI826457 CR599947 CR614160 BQ639606 AA290770 AA938574 BQ689216 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for STMN3    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c
    SP1:              -                 -           -               
    SP2:              -                 -                           
    SP3:              -                                             
    SP4:                                                            


    ECgene alternative splicing isoforms for STMN3

    (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

    STMN3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GTGGCAGCGC

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

    About this image

    STMN3 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    1 LifeMap In Vivo Development Anatomical Compartment/Cell 
    Tissue Anatomical Compartment CellCategory (developmental path)
    BoneMaxillary ProcessBone
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 2 LifeMap Cells 
    NameCategory
    PureStem™ progenitor W8 (Embryonic Progenitor Cell)
    Mesendoderm-like cells (Generation of mesend...)

    See STMN3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for STMN3

    SOURCE GeneReport for Unigene cluster: Hs.639609

    UniProtKB/Swiss-Prot: STMN3_HUMAN, Q9NZ72
    Tissue specificity: Neuron specific

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    In Situ
    Assay Products:
     

     
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    (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 STMN3 gene from 5/17 species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves STMN31 stathmin-like 3 86.3(n)
    93.89(a)
      419263  NM_001004393.1  NP_001004393.1 
    lizard
    (Anolis carolinensis)
    Reptilia STMN36
    --
    84(a)
    1 ↔ 1
    GL343401.1(701644-708067)
    African clawed frog
    (Xenopus laevis)
    Amphibia stmn3-prov2 stathmin-like 3 75.95(n)    BC041517.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC7989701 stathmin-3-like 70.74(n)
    66.67(a)
      798970  XM_001339340.4  XP_001339376.4 
    fruit fly
    (Drosophila melanogaster)
    Insecta stai6
    stathmin
    14(a)
    1 → many
    2L(6100377-6124653)


    ENSEMBL Gene Tree for STMN3 (if available)
    TreeFam Gene Tree for STMN3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for STMN3 gene
    STMN22  STMN42  STMN12  
    3 SIMAP similar genes for STMN3 using alignment to 2 protein entries:     STMN3_HUMAN (see all proteins):
    STMN1    STMN2    STMN4

    STMN3 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for STMN3
    PGOHUM00000246294


    (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

    10/317 NCBI SNPs in STMN3 are shown (see all 317    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs9093331,2
    C,F,A,H,--62270637(+) CCCCAT/GGTCAG 1 -- ds50018Minor allele frequency- G:0.33NA EA 364
    rs1391976211,2
    --62270692(+) GTAGGC/TCCTGC 1 -- ds50010--------
    rs9145611,2
    C,F,A,H,--62270905(+) ATCACC/TGTTGT 1 -- ds500133Minor allele frequency- T:0.16NS EA NA WA CSA 2919
    rs9093341,2
    C,F,O,H,--62270930(+) ATAATC/AATGAT 1 -- ds500124Minor allele frequency- A:0.25MN EA NA NS WA 2742
    rs1874251451,2
    --62271104(+) TTGATA/TGAATT 1 -- ut310--------
    rs115455101,2
    C--62271146(-) TAATAT/CGCACC 1 -- ut31 ese32Minor allele frequency- C:0.00NA 4
    rs1164441231,2
    F,--62271187(+) ATGAGG/AAATAT 1 -- ut311Minor allele frequency- A:0.06WA 118
    rs10592501,2
    C,F,A,H,--62271380(-) CAGAGC/TCACAC 1 -- ut31 ese314Minor allele frequency- T:0.13MN NA WA CSA EA 559
    rs1140152031,2
    F,--62271396(+) CACTGG/ACAGTG 1 -- ut311Minor allele frequency- A:0.03WA 118
    rs119066311,2
    C,H,--62271420(+) TCCCGC/AAGGAT 1 -- ut31 ese32Minor allele frequency- A:0.04CSA WA 120

    HapMap Linkage Disequilibrium report for STMN3 (62271061 - 62284780 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 3 variations for STMN3
         3 CNVs: 32430 4107 30135

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing STMN3
    DNA2.0 Custom Variant and Variant Library Synthesis for STMN3

    (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

    STMN3 for disorders           About GeneDecksing

    OMIM gene information: 608362    OMIM disorders: --

    3 diseases for STMN3:    About MalaCards
    lung cancer    breast cancer    neuronitis


    Export disorders for STMN3 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 STMN3 gene, integrated from 9 sources (see all 28):
    (articles sorted by number of sources associating them with STMN3)
        Utopia: connect your pdf to the dynamic
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    1. Overexpression of M68/DcR3 in human gastrointestinal tract tumors independent of gene amplification and its location in a four-gene cluster. (PubMed id 10655513)1, 2, 3 Bai C.... Caskey C.T. (2000)
    2. SCLIP: a novel SCG10-like protein of the stathmin family expressed in the nervous system. (PubMed id 9603203)1, 2, 3 Ozon S.... Sobel A. (1998)
    3. 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)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    5. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)1, 2 Deloukas P....Rogers J. (2001)
    6. SCG10-like protein (SCLIP) is a STAT3-interacting pro tein involved in maintaining epithelial morphology in MCF-7 breast cancer cells . (PubMed id 19824884)1, 9 Ng D.C....Cao X. (2010)
    7. The trans-Golgi proteins SCLIP and SCG10 interact with chromogranin A to regulate neuroendocrine secretion. (PubMed id 18549247)1, 9 Mahapatra N.R....O'Connor D.T. (2008)
    8. Expression of stathmin family genes in human tissues: non-neural- restricted expression for SCLIP. (PubMed id 12676564)1, 9 Bieche I.... Curmi P.A. (2003)
    9. Stathmin family proteins display specific molecular and tubulin binding properties. (PubMed id 11278715)1, 9 Charbaut E....Sobel A. (2001)
    10. The stathmin phosphoprotein family: intracellular localization and effects on the microtubule network. (PubMed id 9788875)1, 9 Gavet O....Sobel A. (1998)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 50861 HGNC: 15926 AceView: STMN3 Ensembl:ENSG00000197457 euGenes: HUgn50861
    ECgene: STMN3 H-InvDB: STMN3

    (According to HUGE)
    About This Section
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for STMN3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    Patent Information for STMN3 gene:
    Search GeneIP for patents involving STMN3

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