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

VSNL1 Gene

protein-coding   GIFtS: 60
GCID: GC02P017643

visinin-like 1

 Explore 10 diseases affiliated with
VSNL1 via our new
 Human Malady Compendium 
Biological research products
for VSNL1
    

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

Aliases
Visinin-Like 11 2     VILIP-11 2
HLP31 2 3     Hippocalcin-Like Protein 32 3
VILIP1 2 3     VLP-12 3
HPCAL31 2     Visinin-Like Protein 12
HUVISL11 2     VISL13

External Ids:    HGNC: 127221   Entrez Gene: 74472   Ensembl: ENSG000001630327   OMIM: 6008175   UniProtKB: P627603   

Export aliases for VSNL1 gene to outside databases

Previous GC identifers: GC02P017607 GC02P017706 GC02P017496


(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 VSNL1:
This gene is a member of the visinin/recoverin subfamily of neuronal calcium sensor proteins. The encoded protein is
strongly expressed in granule cells of the cerebellum where it associates with membranes in a calcium-dependent manner
and modulates intracellular signaling pathways of the central nervous system by directly or indirectly regulating the
activity of adenylyl cyclase. Alternatively spliced transcript variants have been observed, but their full-length
nature has not been determined. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: VISL1_HUMAN, P62760
Function: Regulates (in vitro) the inhibition of rhodopsin phosphorylation in a calcium-dependent manner (By
similarity)

Gene Wiki entry for VSNL1


(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_000002.11  NC_018913.1  NT_015926.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the VSNL1 gene promoter:
         AML1a   HSF1 (long)   NF-AT   NF-AT4   NF-AT2   HSF2   HSF1short   NF-AT3   NF-AT1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidVSNL1 promoter sequence
   Search SABiosciences Chromatin IP Primers for VSNL1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat VSNL1


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

Entrez Gene cytogenetic band: 2p24.3   Ensembl cytogenetic band:  2p24.2   HGNC cytogenetic band: 2p24.3

VSNL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
VSNL1 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P017643:  view genomic region     (about GC identifiers)

Start:
17,720,393 bp from pter      End:
17,838,285 bp from pter
Size:
117,893 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: VISL1_HUMAN, P62760 (See protein sequence)
Recommended Name: Visinin-like protein 1  
Size: 191 amino acids; 22142 Da
Miscellaneous: Probably binds three calcium ions
Secondary accessions: D6W515 P28677 P29103 P42323 Q9UM20

Explore the universe of human proteins at neXtProt for VSNL1: NX_P62760

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P62760

  • VSNL1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_003376.2  
    ENSEMBL proteins: 
     ENSP00000384014   ENSP00000405511   ENSP00000295156   ENSP00000390124   ENSP00000384719  

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

    VSNL1 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR018247 EF_Hand_1_Ca_BS
     IPR001125 Recoverin
     IPR011992 EF-hand-like_dom
     IPR002048 EF_hand_Ca-bd
     IPR018248 EF-hand

    Graphical View of Domain Structure for InterPro Entry P62760

    ProtoNet protein and cluster: P62760

    1 Blocks protein family: IPB001125 Recoverin family signature

    UniProtKB/Swiss-Prot: VISL1_HUMAN, P62760
    Similarity: Belongs to the recoverin family
    Similarity: Contains 4 EF-hand domains


    (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: VISL1_HUMAN, P62760
    Function: Regulates (in vitro) the inhibition of rhodopsin phosphorylation in a calcium-dependent manner (By
    similarity)

         Genatlas biochemistry entry for VSNL1:
    visinin-like peptide 1,homolog to Rat RNVP1

    miRNA
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    miRTarBase miRNAs that target VSNL1:
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    8/30 QIAGEN miScript miRNA Assays for microRNAs that regulate VSNL1 (see all 30):
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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:0005509calcium ion binding IEA--


    VSNL1 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:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for VSNL1

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

    5/7 Interacting proteins for VSNL1 (P627602, 3 ENSP000002951564) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATXN1P542532, 3, ENSP000002447694MINT-2864086 I2D: score=3 STRING: ENSP00000244769
    GFI1BQ5VTD92, 3, ENSP000003447824MINT-2864105 I2D: score=3 STRING: ENSP00000344782
    DTX2Q86UW92, 3, ENSP000003228854MINT-66129 I2D: score=4 STRING: ENSP00000322885
    ACTBP607093, ENSP000003499604I2D: score=2 STRING: ENSP00000349960
    CHRNA4P436813, ENSP000003592854I2D: score=1 STRING: ENSP00000359285
    About this table

    (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

    VSNL1 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for VSNL1

    1 HMDB Compound for VSNL1    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--
    1 Novoseek chemical compound relationship for VSNL1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 44.1 20 10531361 (5), 9109541 (3), 12200122 (2), 8593671 (2) (see all 9)

    Search CenterWatch for drugs/clinical trials and news about VSNL1 / VISL1 

    (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 VSNL1 gene: 
    NM_003385.4  

    Unigene Cluster for VSNL1:

    Visinin-like 1
    Hs.444212  [show with all ESTs]
    Unigene Representative Sequence: NM_003385
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000404666 ENST00000457525 ENST00000295156(uc002rcm.3) ENST00000451533
    ENST00000483921 ENST00000406397

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    8/30 QIAGEN miScript miRNA Assays for microRNAs that regulate VSNL1 (see all 30):
    hsa-miR-217 hsa-miR-3910 hsa-miR-607 hsa-let-7d hsa-miR-202 hsa-let-7c hsa-miR-4298 hsa-let-7g
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    Additional cDNA sequence: 

    AB001104.1 AF039555.1 AK308816.1 BC022012.2 U14747.1 

    11 DOTS entries:

    DT.75111377  DT.100816403  DT.100816400  DT.100816402  DT.121003084  DT.95073477  DT.95217781  DT.100816397 
    DT.95257430  DT.95217815  DT.400300 

    24/187 AceView cDNA sequences (see all 187):

    BX952397 CR621143 AL157597 CR603967 BM727371 BX440992 BF591289 CR606471 
    AI347986 CR618380 BX422861 AI206780 CR597497 BM695471 F02034 BX952064 
    F06242 F02633 BX508612 CB117549 F02525 AI318387 CR590184 T33497 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for VSNL1    About this scheme

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


    ECgene alternative splicing isoforms for VSNL1

    (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

    VSNL1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TGAAAAGTAA

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

    About this image

    VSNL1 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    2 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    KidneyUreteric BudUreteric Bud Tip CellsKidney
    HeartAtrioventricular CanalHeart
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 3 LifeMap Cells 
    NameCategory
    CyT49 (Embryonic Stem Cell)Early Embryo, Inner Cell Mass
    Line H9 (WA09) (Embryonic Stem Cell)Early Embryo, Inner Cell Mass
    Matrigel embedded cells (Derivation of cardio...)

    See VSNL1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for VSNL1

    SOURCE GeneReport for Unigene cluster: Hs.444212

    UniProtKB/Swiss-Prot: VISL1_HUMAN, P62760
    Tissue specificity: Brain and retina. Neuron-specific in the central and peripheral nervous system. Increased in the
    cerebrospinal fluid of Alzheimer disease patients (at protein level)

        SABiosciences Expression via Pathway-Focused PCR Array including VSNL1: 
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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 chordates.

    Orthologs for VSNL1 gene from 4/18 species (see all 18)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves VSNL11 visinin-like 1 89.18(n)
    100(a)
      396189  NM_205255.1  NP_990586.1 
    lizard
    (Anolis carolinensis)
    Reptilia VSNL16
    --
    99(a)
    1 ↔ 1
    1(143127052-143129326)
    African clawed frog
    (Xenopus laevis)
    Amphibia CD303254.12   -- 84.46(n)    CD303254.1 
    zebrafish
    (Danio rerio)
    Actinopterygii CK395750.12   -- 83.7(n)    CK395750.1 


    ENSEMBL Gene Tree for VSNL1 (if available)
    TreeFam Gene Tree for VSNL1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for VSNL1 gene
    HPCA2  KCNIP32  KCNIP42  GUCA1A2  KCNIP12  RCVRN2  HPCAL12  GUCA1B2  
    NCALD2  KCNIP22  HPCAL42  NCS12  GUCA1C2  
    18/21 SIMAP similar genes for VSNL1 using alignment to 5 protein entries:     VISL1_HUMAN (see all proteins) (see all similar genes):
    HPCAL4    NCALD    DKFZp781K1922    HPCAL1    HPCA    NCS1
    RCV1    RCVRN    KCNIP4    KCNIP2    KCNIP3    KCNIP1
    GUCA1B    DKFZp686E1183    GUCA1A    EFCAB1    GUCA1C    PPP3R1

    VSNL1 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

    10/1857 NCBI SNPs in VSNL1 are shown (see all 1857    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 2 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs789936621,2
    C,F,--17719841(+) ACATTT/ATTTCC 1 -- us2k11Minor allele frequency- A:0.03WA 118
    rs1439645131,2
    --17719923(+) TAGGTA/GTATCT 1 -- us2k10--------
    rs1897896931,2
    --17719997(+) TTCTCC/GAGAGA 1 -- us2k10--------
    rs1812931441,2
    --17720043(+) GAAATA/CGACCA 1 -- us2k10--------
    rs130061721,2
    C,--17720203(+) CCAGAG/ACGAAG 1 -- us2k13Minor allele frequency- A:0.26NA WA 240
    rs795016331,2
    F,--17720270(+) GCGCCG/CTGGTC 1 -- us2k11Minor allele frequency- C:0.06NA 120
    rs621304411,2
    --17720430(+) AGTTCC/ATGGGT 1 -- us2k12Minor allele frequency- A:0.07NA 122
    rs75938811,2
    C,F,A,H,--17720520(+) GACTTG/CTCTGG 1 -- us2k1 ese36Minor allele frequency- C:0.14NS EA NA 538
    rs762609171,2
    C,F,--17720675(+) GGTAGG/ATCAAC 1 -- us2k11Minor allele frequency- A:0.03WA 118
    rs1850759951,2
    --17720722(+) ACGCTC/GTGCAA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for VSNL1 (17720393 - 17838285 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 4 variations for VSNL1
         4 CNVs: 89510 89509 89508 78464

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing VSNL1
    DNA2.0 Custom Variant and Variant Library Synthesis for VSNL1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    VSNL1 for disorders           About GeneDecksing

    OMIM gene information: 600817    OMIM disorders: --

    10 diseases for VSNL1:    About MalaCards
    non-small cell lung carcinoma    brain injury    neuronitis    alzheimer's disease
    lung carcinoma    ataxia    carcinoma    neuroblastoma
    schizophrenia    pancreatitis

    1 Novoseek disease relationship for VSNL1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    alzheimers disease 37.4 2 11173883 (1), 19264852 (1)

    Human Genome Epidemiology (HuGE) Navigator: VSNL1 (1 document)

    Export disorders for VSNL1 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 VSNL1 gene, integrated from 9 sources (see all 51):
    (articles sorted by number of sources associating them with VSNL1)
        Utopia: connect your pdf to the dynamic
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    1. Sequence characterization and genetic mapping of the human VSNL1 gene, a homologue of the rat visinin-like peptide RNVP1. (PubMed id 8530085)1, 2, 3, 9 Polymeropoulos M.H.... Lennon G.G. (1995)
    2. Isolation of two human cDNAs, HLP3 and HLP4, homologous to the neuron-specific calcium-binding protein genes. (PubMed id 10520747)1, 2, 9 Kobayashi M.... Takamatsu K. (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. Electron microscopic localization of gamma- and beta II-subspecies of protein kinase C in rat hippocampus. (PubMed id 2202488)1, 3 Kose A....Tanaka C. (1990)
    5. Involvement of visinin-like protein-1 (VSNL-1) in regulating proliferative and invasive properties of neuroblastoma. (PubMed id 17615261)1, 9 Xie Y....Ren Y. (2007)
    6. The neuronal calcium-sensor protein VILIP modulates cyclic AMP accumulation in stably transfected C6 glioma cells: amino-terminal myristoylation determines functional activity. (PubMed id 9109541)1, 9 Braunewell K.H....Gundelfinger E.D. (1997)
    7. The neuronal EF-hand Ca(2+)-binding protein VILIP: interaction with cell membrane and actin-based cytoskeleton. (PubMed id 8780737)1, 9 Lenz S.E....Gundelfinger E.D. (1996)
    8. Visinin-like protein 1 regulates natriuretic peptide receptor B in the heart. (PubMed id 20079378)1, 9 Buttgereit J....Bader M. (2010)
    9. Functional analysis of calcium-binding EF-hand motifs of visinin-like protein-1. (PubMed id 12200122)1, 9 Lin L....Anand R. (2002)
    10. The brain injury biomarker VLP-1 is increased in the cerebrospinal fluid of Alzheimer disease patients. (PubMed id 18703769)2, 9 Lee J.M.... Ladenson J.H. (2008)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 7447 HGNC: 12722 AceView: VSNL1 Ensembl:ENSG00000163032 euGenes: HUgn7447
    ECgene: VSNL1 H-InvDB: VSNL1

    (According to HUGE)
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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 VSNL1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    Patent Information for VSNL1 gene:
    Search GeneIP for patents involving VSNL1

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