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

SALL2 Gene

protein-coding   GIFtS: 55
GCID: GC14M021989

sal-like 2 (Drosophila)

(Previous name: sal (Drosophila)-like 2 )
 Explore 3 diseases affiliated with
SALL2 via our new
 Human Malady Compendium 
Biological research products
for SALL2
    

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

Aliases
Sal-Like 2 (Drosophila)1 2     HSAL22 5
ZNF7951 2 3     Hsal21
KIAA03601 3     Sal (Drosophila)-Like 21
Zinc Finger Protein 7952 3     P150(Sal2)1
Zinc Finger Protein SALL22 3     Sal-Like Protein 22
Zinc Finger Protein Spalt-22 3     SAL23
Sal-22 3     HSal21

External Ids:    HGNC: 105261   Entrez Gene: 62972   Ensembl: ENSG000001658217   OMIM: 6022195   UniProtKB: Q9Y4673   

Export aliases for SALL2 gene to outside databases

Previous GC identifers: GC14M019361 GC14M015776 GC14M019979 GC14M019980 GC14M021059 GC14U900549 GC14M002107


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

UniProtKB/Swiss-Prot: SALL2_HUMAN, Q9Y467
Function: Probable transcription factor

Gene Wiki entry for SALL2


(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_000014.8  NC_018925.1  NT_026437.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SALL2 gene promoter:
         GR   AML1a   RREB-1   MyoD   NF-kappaB   AREB6   NF-kappaB2   GR-alpha   PPAR-gamma2   NF-kappaB1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): SALL2 promoter sequence
   Search SABiosciences Chromatin IP Primers for SALL2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SALL2


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

Entrez Gene cytogenetic band: 14q11.1-q12   Ensembl cytogenetic band:  14q11.2   HGNC cytogenetic band: 14q11.1-q12.1

SALL2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SALL2 gene location

GeneLoc information about chromosome 14         GeneLoc Exon Structure

GeneLoc location for GC14M021989:  view genomic region     (about GC identifiers)

Start:
21,989,231 bp from pter      End:
22,005,350 bp from pter
Size:
16,120 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: SALL2_HUMAN, Q9Y467 (See protein sequence)
Recommended Name: Sal-like protein 2  
Size: 1007 amino acids; 105309 Da
Subcellular location: Nucleus (Probable)
Developmental stage: In fetal brain exclusively in pontine nuclei
Sequence caution: Sequence=BAA21638.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: B2RMX6 B9EGK8 Q9Y4G1

Explore the universe of human proteins at neXtProt for SALL2: NX_Q9Y467

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9Y467

  • SALL2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_005398.1  
    ENSEMBL proteins: 
     ENSP00000333537   ENSP00000320536   ENSP00000445916   ENSP00000440054   ENSP00000396773  
     ENSP00000438493   ENSP00000439654  

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    Novus Biologicals SALL2 Lysate
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for SALL2

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005634nucleus NAS--
    GO:0016581NuRD complex IEA--


    SALL2 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

    SALL2 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q9Y467

    ProtoNet protein and cluster: Q9Y467

    UniProtKB/Swiss-Prot: SALL2_HUMAN, Q9Y467
    Similarity: Belongs to the sal C2H2-type zinc-finger protein family
    Similarity: Contains 7 C2H2-type zinc fingers


    (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: SALL2_HUMAN, Q9Y467
    Function: Probable transcription factor

         Genatlas biochemistry entry for SALL2:
    brain specific transcription factor,Drosophila homeotic gene Sal-like 2,expressed in different brain areas

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    hsa-miR-320a hsa-miR-3194-5p hsa-miR-764 hsa-miR-23a hsa-miR-31 hsa-miR-1237 hsa-miR-130a* hsa-miR-320d
    SwitchGear 3'UTR luciferase reporter plasmidSALL2 3' UTR sequence
    Inhib. RNA
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    Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding NAS--
    GO:0003700sequence-specific DNA binding transcription factor activity NAS--
    GO:0008270zinc ion binding IEA--


    SALL2 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for SALL2:
     Decreased viability of wild-ty 

    Animal Models:
         Mouse knock-outs for SALL2: Sall2tm1Jkoh Sall2tm1Ryn
         5 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Sall2):
     embryogenesis  mortality/aging  nervous system  normal  renal/urinary system 

    SALL2 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 SALL2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/50 Interacting proteins for SALL2 (Q9Y4672, 3 ENSP000003335374) via UniProtKB, MINT, STRING, and/or I2D (see all 50)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NGFRP081382, 3, ENSP000001722294MINT-7012365 MINT-7012311 MINT-7012345 I2D: score=2 STRING: ENSP00000172229
    SALL4Q9UJQ43, ENSP000002170864I2D: score=1 STRING: ENSP00000217086
    UBCP0CG483, ENSP000003448184I2D: score=1 STRING: ENSP00000344818
    ZMIZ2Q8NF643, ENSP000003117784I2D: score=3 STRING: ENSP00000311778
    CEP76Q8TAP63, ENSP000002621274I2D: score=3 STRING: ENSP00000262127
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IEA--
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006355regulation of transcription, DNA-dependent NAS--
    GO:0021915neural tube development IEA--
    GO:0045892negative regulation of transcription, DNA-dependent ----


    SALL2 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 SALL2
    Search CenterWatch for drugs/clinical trials and news about SALL2 

    (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 SALL2 gene: 
    NM_005407.1  

    Unigene Clusters for SALL2:

    Sal-like 2 (Drosophila)
    Hs.416358  [show with all ESTs], Hs.743336  [show with all ESTs]
    Unigene Representative Sequences: AK296414, NM_005407
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000327430(uc010tly.2 uc010tlz.1 uc001wbe.3 uc010tma.1 uc001wbg.1)
    ENST00000317492(uc001wbf.3) ENST00000538754 ENST00000546363 ENST00000450879
    ENST00000537235 ENST00000541965

    miRNA
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    hsa-miR-320a hsa-miR-3194-5p hsa-miR-764 hsa-miR-23a hsa-miR-31 hsa-miR-1237 hsa-miR-130a* hsa-miR-320d
    SwitchGear 3'UTR luciferase reporter plasmidSALL2 3' UTR sequence
    Inhib. RNA
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SALL2
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SALL2

    Additional cDNA sequence: 

    AB002358.2 AF465630.1 AK001276.1 AK294051.1 AK299931.1 BC136528.1 BC136529.1 X98834.1 

    9 DOTS entries:

    DT.87013253  DT.92422658  DT.100755383  DT.100755384  DT.102823693  DT.100645217  DT.100664725  DT.100755386 
    DT.75102282 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for SALL2 (see all 6)    About this scheme

    ExUns: 1 ^ 2 ^ 3a · 3b ^ 4a · 4b · 4c · 4d ^ 5 ^ 6a · 6b
    SP1:                                      -     -                     
    SP2:                                      -     -     -               
    SP3:              -     -                 -     -     -               
    SP4:                                                                  
    SP5:        -     -     -                                             


    ECgene alternative splicing isoforms for SALL2

    (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

    SALL2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GGGGATTTCC

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

    About this image

    SALL2 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 2 LifeMap Cells 
    NameCategory
    Induced pluripotent stem cells (using UTF1) (Induced Pluripotent Stem Cell)Early Embryo, Fibroblast
    Line H1 (WA01) (Embryonic Stem Cell)Early Embryo, Inner Cell Mass
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SALL2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SALL2

    SOURCE GeneReport for Unigene clusters: Hs.416358 Hs.743336

    UniProtKB/Swiss-Prot: SALL2_HUMAN, Q9Y467
    Tissue specificity: Highest levels in adult brain (in different areas). Lower levels in heart; very low levels in
    kidney and pancreas

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SALL2

    (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 SALL2 gene from 4/14 species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia SALL26
    --
    55(a)
    1 ↔ 1
    AAWZ02041297(1011-3365)
    zebrafish
    (Danio rerio)
    Actinopterygii sall26
    sal-like 2 (Drosophila)
    20(a)
    1 ↔ 1
    2(37850519-37859580)
    fruit fly
    (Drosophila melanogaster)
    Insecta salm3 oenocyte development specific RNA polymerase
    II more
    59(a)     --
    worm
    (Caenorhabditis elegans)
    Secernentea sem-46
    SEx Muscle abnormal family member (sem-4)
    17(a)
    1 → many
    I(7038897-7048833)


    ENSEMBL Gene Tree for SALL2 (if available)
    TreeFam Gene Tree for SALL2 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SALL2 gene
    SALL32  ZNF2362  SALL12  SALL42  
    18/20 SIMAP similar genes for SALL2 using alignment to 7 protein entries:     SALL2_HUMAN (see all proteins) (see all similar genes):
    DKFZp434J0650    HZF16    OVOL3    ZFS-5    ZNFN1A2    ZNF844
    PLZF    DKFZp686N0199    KLF1    ZNF808    ZNF    KLF13
    PLAGL1    ZNF410    ZNF78L1    ZNF219    ZFP64    kr-znf3

    SALL2 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

    10/399 NCBI SNPs in SALL2 are shown (see all 399    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 14 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1912430351,2
    --21988791(+) TACATG/TTTTTT 1 -- ds50010--------
    rs12638091,2
    C,F,A,H,--21988900(+) AAGACT/GGAAAA 1 -- ds500124Minor allele frequency- G:0.26NS EA NA WA CSA 2766
    rs1145872081,2
    F,--21989052(+) CCACAG/AAGAAG 1 -- ds50011Minor allele frequency- A:0.02WA 118
    rs1461402381,2
    --21989186(+) CACACC/TCCAGC 1 -- ds50010--------
    rs775442661,2
    --21989210(+) ATGAAA/GTAAGG 1 -- ds50010--------
    rs1489053861,2
    --21989220(+) GAGAAA/GCACAT 1 -- ds50010--------
    rs1129772831,2
    --21989324(+) GCCTAC/GAGCTT 1 -- ut312Minor allele frequency- G:0.04CSA WA 120
    rs1827978311,2
    --21989369(+) AAACCC/TTCACT 1 -- ut310--------
    rs1389034241,2
    C,--21989472(+) TGGAG-/CTGGTC
    TCCCAAAGT
    CTGGG
    1 -- ut310--------
    rs1434268261,2
    --21989521(+) AGCCTA/GCGGAT 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SALL2 (21989231 - 22005350 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for SALL2
         1 CNV: 5318

    SABiosciences Cancer Mutation PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for SALL2

    (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

    SALL2 for disorders           About GeneDecksing

    OMIM gene information: 602219    OMIM disorders: --

    3 diseases for SALL2:    About MalaCards
    synovial sarcoma    sarcoma    neuronitis

    Human Genome Epidemiology (HuGE) Navigator: SALL2 (3 documents)

    Export disorders for SALL2 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 SALL2 gene, integrated from 9 sources (see all 29):
    (articles sorted by number of sources associating them with SALL2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Isolation, characterization, and organ-specific expression of two novel human zinc finger genes related to the Drosophila gene spalt. (PubMed id 8975705)1, 2, 3 Kohlhase J.... Stick R. (1996)
    2. Proteomic analysis of ubiquitinated proteins in normal hepatocyte cell line Chang liver cells. (PubMed id 18655026)1, 2 Tan F....Peng X. (2008)
    3. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PubMed id 12168954)1, 2 Nakajima D.... Nagase T. (2002)
    4. Prediction of the coding sequences of unidentified human genes. VII. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9205841)1, 2 Nagase T.... Ohara O. (1997)
    5. Tissue microarray validation of epidermal growth factor receptor and SALL2 in synovial sarcoma with comparison to tumors of similar histology. (PubMed id 14507652)1, 9 Nielsen T.O....van de Rijn M. (2003)
    6. The polyoma virus large T binding protein p150 is a tr anscriptional repressor of c-MYC. (PubMed id 23029531)1 Sung C.K....Benjamin T. (2012)
    7. Human papillomavirus type 16 E6 inhibits p21(WAF1) tr anscription independently of p53 by inactivating p150(Sal2). (PubMed id 21791360)1 Parroche P....Tommasino M. (2011)
    8. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    9. DNA-binding and regulatory properties of the transcri ption factor and putative tumor suppressor p150(Sal2). (PubMed id 21362508)1 Gu H....Benjamin T. (2011)
    10. Sox2 cooperates with Chd7 to regulate genes that are m utated in human syndromes. (PubMed id 21532573)1 Engelen E....Poot R.A. (2011)

    (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)
    About This Section
    Entrez Gene: 6297 HGNC: 10526 Ensembl:ENSG00000165821 euGenes: HUgn6297 ECgene: SALL2
    H-InvDB: SALL2

    (According to HUGE)
    About This Section
    HUGE: KIAA0360

    (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 SALL2 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 SALL2 gene:
    Search GeneIP for patents involving SALL2

    GeneCards and IP:
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