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RBM39 Gene

protein-coding   GIFtS: 58
GCID: GC20M034291

RNA Binding Motif Protein 39

(Previous names: RNA-binding region (RNP1, RRM) containing 2)
(Previous symbol: RNPC2)
  See RBM39-related disease
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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
RNA Binding Motif Protein 391 2     HCC12 3
RNPC21 2 3 5     CAPER2 5
RNA-Binding Region (RNP1, RRM) Containing 21 2     CAPERalpha2
Coactivator Of Activating Protein-1 And Estrogen Receptors1 2     FSAP592
Functional Spliceosome-Associated Protein 591 2     RNA-Binding Protein 392
Hepatocellular Carcinoma Protein 12 3     RNA-Binding Motif Protein 393
Splicing Factor HCC12 3     RNA-Binding Region-Containing Protein 23

External Ids:    HGNC: 159231   Entrez Gene: 95842   Ensembl: ENSG000001310517   OMIM: 6047395   UniProtKB: Q144983   
ORGUL members:         

Export aliases for RBM39 gene to outside databases

Previous GC identifers: GC20M033755 GC20M031068


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for RBM39 Gene:
This gene encodes a member of the U2AF65 family of proteins. The encoded protein is found in the nucleus, where it
co-localizes with core spliceosomal proteins. It has been shown to play a role in both steroid hormone
receptor-mediated transcription and alternative splicing, and it is also a transcriptional coregulator of the
viral oncoprotein v-Rel. Multiple transcript variants have been observed for this gene. A related pseudogene has
been identified on chromosome X. (provided by RefSeq, Aug 2011)

GeneCards Summary for RBM39 Gene:
RBM39 (RNA binding motif protein 39) is a protein-coding gene. Diseases associated with RBM39 include hepatocellular carcinoma. GO annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is RBM23.

UniProtKB/Swiss-Prot: RBM39_HUMAN, Q14498
Function: Transcriptional coactivator for steroid nuclear receptors ESR1/ER-alpha and ESR2/ER-beta, and JUN/AP-1
(By similarity). May be involved in pre-mRNA splicing process

Gene Wiki entry for RBM39 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000020.10  NT_011362.11  NC_018931.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the RBM39 gene promoter:
         NF-AT4   NF-AT2   FOXF2   AP-1   Pax-6   NF-AT3   NF-AT1   NF-AT   Hlf   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 3): RBM39 promoter sequence
   Search Chromatin IP Primers for RBM39

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RBM39


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

Entrez Gene cytogenetic band: 20q11.22   Ensembl cytogenetic band:  20q11.22   HGNC cytogenetic band: 20q11.22

RBM39 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RBM39 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M034291:  view genomic region     (about GC identifiers)

Start:
34,291,531 bp from pter      End:
34,330,258 bp from pter
Size:
38,728 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for RBM39

(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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: RBM39_HUMAN, Q14498 (See protein sequence)
Recommended Name: RNA-binding protein 39  
Size: 530 amino acids; 59380 Da
Subunit: Interacts with NCOA6 (By similarity). Interacts with RSRC1 (via Arg/Ser-rich domain)
Miscellaneous: Antibodies against RNPC2 are present in sera from a patient with hepatocellular carcinoma who
developed several autoantibodies
2 PDB 3D structures from and Proteopedia for RBM39:
2JRS (3D)        2MHN (3D)    
Secondary accessions: A2RRD3 A5D8W2 B0BLV3 E1P5S0 E1P5S1 Q14499
Alternative splicing: 3 isoforms:  Q14498-1   Q14498-2   Q14498-3   

Explore the universe of human proteins at neXtProt for RBM39: NX_Q14498

Explore proteomics data for RBM39 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys178, Lys232, Lys244
  • Modification sites at PhosphoSitePlus

  • See RBM39 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_001229528.1  NP_001229529.1  NP_004893.1  NP_909122.1  

    ENSEMBL proteins: 
     ENSP00000253363   ENSP00000354437   ENSP00000344581   ENSP00000385977   ENSP00000436747  
     ENSP00000394602   ENSP00000395124   ENSP00000394824   ENSP00000363150   ENSP00000397917  
     ENSP00000393493   ENSP00000389459   ENSP00000395563   ENSP00000406900   ENSP00000405916  
     ENSP00000390303   ENSP00000407466   ENSP00000397443   ENSP00000407150   ENSP00000380527  
     ENSP00000384541  

    RBM39 Human Recombinant Protein Products:

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    Cloud-Clone Corp. Proteins for RBM39

     
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    RBM39 Assay Products:

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    Search eBioscience for ELISAs for RBM39 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    RBM: RNA binding motif (RRM) containing

    3 InterPro protein domains:
     IPR006509 CC1_SF
     IPR012677 Nucleotide-bd_a/b_plait
     IPR000504 RRM_dom

    Graphical View of Domain Structure for InterPro Entry Q14498

    ProtoNet protein and cluster: Q14498

    1 Blocks protein domain: IPB000504 RNA-binding region RNP-1 (RNA recognition motif)

    UniProtKB/Swiss-Prot: RBM39_HUMAN, Q14498
    Similarity: Belongs to the splicing factor SR family
    Similarity: Contains 3 RRM (RNA recognition motif) domains


    Find genes that share domains with RBM39           About GenesLikeMe


    (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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: RBM39_HUMAN, Q14498
    Function: Transcriptional coactivator for steroid nuclear receptors ESR1/ER-alpha and ESR2/ER-beta, and JUN/AP-1
    (By similarity). May be involved in pre-mRNA splicing process

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003723RNA binding ----
    GO:0005515protein binding IPI15798186
    GO:0044822poly(A) RNA binding IDA--
         
    Find genes that share ontologies with RBM39           About GenesLikeMe


    Phenotypes:
         3 GenomeRNAi human phenotypes for RBM39:
     Decreased viability  Decreased viability of wild-ty  Synthetic lethal with Ras 

         1 MGI mutant phenotype (inferred from 1 allele(MGI details for Rbm39):
     mortality/aging 

    Find genes that share phenotypes with RBM39           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for RBM39
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       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for RBM39

    miRNA
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    miRTarBase miRNAs that target RBM39:
    hsa-mir-22-3p (MIRT050471), hsa-mir-26a-5p (MIRT050133), hsa-mir-484 (MIRT041834), hsa-mir-221-3p (MIRT046886), hsa-mir-1 (MIRT023844)

    Block miRNA regulation of human, mouse, rat RBM39 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate RBM39 (see all 24):
    hsa-miR-140-5p hsa-miR-362-3p hsa-miR-3655 hsa-miR-520d-5p hsa-miR-431 hsa-miR-513c hsa-miR-3162-5p hsa-miR-27b*
    SwitchGear 3'UTR luciferase reporter plasmidRBM39 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for RBM39
    Predesigned siRNA for gene silencing in human, mouse, rat RBM39

    Gene Editing
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    GenScript: all cDNA clones in your preferred vector (see all 2): RBM39 (NM_004902)
    Browse Sino Biological Human cDNA Clones
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RBM39


    (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 UniProtKB/Swiss-Prot
    RBM39_HUMAN, Q14498: Nucleus speckle. Note=Concentrated in nuclear speckles. Colocalizes with the core
    spliceosomal snRNP proteins
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytoskeleton4
    cytosol1

    Gene Ontology (GO): Selected cellular component terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm TAS8227358
    GO:0005730NOT nucleolus IDA--
    GO:0005813centrosome ----
    GO:0005815microtubule organizing center IDA--

    Find genes that share ontologies with RBM39           About GenesLikeMe


    (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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    SuperPaths for RBM39 About    
    See pathways by source

    SuperPathContained pathways About
    1mRNA Splicing - Major Pathway
    mRNA processing0.44


    1 BioSystems Pathway for RBM39
        mRNA processing


        Pathway & Disease-focused RT2 Profiler PCR Array including RBM39: 
              Prostate Cancer in human mouse rat

    Interactions:

        Search GeneGlobe Interaction Network for RBM39

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

    Selected Interacting proteins for RBM39 (Q144981, 2, 3 ENSP000002533634) via UniProtKB, MINT, STRING, and/or I2D (see all 868)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DDX39BQ138382, 3, ENSP000003794754MINT-7945693 MINT-7947479 I2D: score=1 STRING: ENSP00000379475
    ENSG00000215425Q138382, 3MINT-7945693 MINT-7947479 I2D: score=1 
    ENSG00000225073Q138382, 3MINT-7945693 MINT-7947479 I2D: score=1 
    ENSG00000225859Q138382, 3MINT-7945693 MINT-7947479 I2D: score=1 
    ENSG00000229496Q138382, 3MINT-7945693 MINT-7947479 I2D: score=1 
    About this table

    Gene Ontology (GO): 5 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated IEA--
    GO:0006396RNA processing TAS8227358
    GO:0006397mRNA processing IEA--
    GO:0008380RNA splicing IEA--

    Find genes that share ontologies with RBM39           About GenesLikeMe



    (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 RBM39



    (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,
    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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for RBM39 gene (7 alternative transcripts): 
    NM_001242599.1  NM_001242600.1  NM_004902.3  NM_184234.2  NM_184237.1  NM_184241.1  NM_184244.1  

    Unigene Cluster for RBM39:

    RNA binding motif protein 39
    Hs.282901  [show with all ESTs]
    Unigene Representative Sequence: NR_040722
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 44):
    ENST00000463004(uc002xdz.3 uc010gfn.3) ENST00000461283 ENST00000253363
    ENST00000361162(uc002xee.3 uc002xeb.3 uc002xec.3 uc010zvm.2 uc002xeg.3)
    ENST00000338163 ENST00000403542(uc002xef.3 uc010zvn.2 uc002xed.3)
    ENST00000528062 ENST00000495293 ENST00000476806 ENST00000444878 ENST00000429968
    ENST00000492779 ENST00000496183 ENST00000482563 ENST00000490354 ENST00000465158
    ENST00000448303 ENST00000470563
    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat RBM39 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate RBM39 (see all 24):
    hsa-miR-140-5p hsa-miR-362-3p hsa-miR-3655 hsa-miR-520d-5p hsa-miR-431 hsa-miR-513c hsa-miR-3162-5p hsa-miR-27b*
    SwitchGear 3'UTR luciferase reporter plasmidRBM39 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for RBM39
    Predesigned siRNA for gene silencing in human, mouse, rat RBM39
    Clone
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    OriGene clones in human, mouse for RBM39 (see all 14)
    OriGene ORF clones in mouse, rat for RBM39
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): RBM39 (NM_004902)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for RBM39
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RBM39
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for RBM39
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat RBM39
      QuantiTect SYBR Green Assays in human, mouse, rat RBM39
      QuantiFast Probe-based Assays in human, mouse, rat RBM39

    Additional mRNA sequence: 

    AK126158.1 AK297520.1 AK299165.1 AK299678.1 AK303910.1 BC008204.1 BC131543.1 BC141835.1 
    BC158172.1 DQ656052.2 L10910.1 L10911.1 NR_040722.1 NR_040723.1 NR_040724.1 

    Selected DOTS entries (see all 71):

    DT.100678713  DT.120803101  DT.97855199  DT.100678708  DT.100800155  DT.450268  DT.92453035  DT.92453063 
    DT.120803079  DT.92453066  DT.120803039  DT.92453059  DT.97855197  DT.86836062  DT.100860162  DT.120802966 
    DT.40119777  DT.97855200  DT.100807576  DT.120803010  DT.92363644  DT.91919362  DT.87017016  DT.92453061 

    Selected AceView cDNA sequences (see all 361):

    NM_184244 AK130283 AU125846 BU735805 CK429781 CB157785 CB113362 CB142085 
    CB215717 BP343097 BP344096 AI816498 BQ070804 BQ017123 BG319448 AW160948 
    L10911 AA426270 CA315023 BG434812 CR590994 BP333963 AA160261 BQ954122 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for RBM39 (see all 13)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12a · 12b ^ 13 ^ 14a · 14b ^ 15 ^ 16 ^
    SP1:              -     -           -     -     -     -     -           -     -                                                                                 
    SP2:                                                                                                  -                                                         
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                  -         

    ExUns: 17a · 17b ^ 18a · 18b ^ 19a · 19b ^ 20a · 20b ^ 21a · 21b ^ 22
    SP1:                                                                  
    SP2:                                                                  
    SP3:              -                                                   
    SP4:              -                                                   
    SP5:                                                                  


    ECgene alternative splicing isoforms for RBM39

    (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)
    About This Section

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    RBM39 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCAGGTGGTT
    RBM39 Expression
    About this image


    RBM39 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 23) fully expand
     
     Gonad (Reproductive System)
             Primordial Germ Cells Primitive Gonad
     
     Eye (Sensory Organs)
             nGnG Amacrine Cells Inner Nuclear Layer
     
     Neurons
             nGnG Amacrine Cells Inner Nuclear Layer
     
     Brain (Nervous System)
             Cerebral Cortex
     
     Bone (Muscoskeletal System)
             Bone Marrow
    RBM39 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    RBM39 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.282901

    UniProtKB/Swiss-Prot: RBM39_HUMAN, Q14498
    Tissue specificity: Widely expressed. Highly expressed in pancreas, skeletal muscle, lung and brain. Expressed at
    intermediate level in kidney, liver and heart

        Pathway & Disease-focused RT2 Profiler PCR Array including RBM39: 
              Prostate Cancer in human mouse rat

    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for RBM39
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat RBM39
    QuantiTect SYBR Green Assays in human, mouse, rat RBM39
    QuantiFast Probe-based Assays in human, mouse, rat RBM39
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RBM39

    (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 eukaryotes.

    Orthologs for RBM39 gene from Selected species (see all 20)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rbm391 , 5 RNA binding motif protein 391, 5 93.08(n)1
    99.81(a)1
      2 (77.36 cM)5
    1707911  NM_133242.21  NP_573505.21 
     1561472395 
    chicken
    (Gallus gallus)
    Aves --
    --
    Uncharacterized protein
    98(a)
    98(a)
    many → 1
    many → 1
    20(1014899-1028507)
    20(1104770-1132973)
    lizard
    (Anolis carolinensis)
    Reptilia RBM396
    RNA binding motif protein 39
    97(a)
    1 ↔ 1
    4(134443720-134472258)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.43952 Xenopus laevis transcribed sequence with moderate similarity more 82.97(n)    CA987746.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.10402 Danio rerio mRNA similar to RNA-binding region (RNP1, more 78.07(n)    BC044487.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG112666
    --
    48(a)
    1 → many
    2L(7032713-7037916)
    worm
    (Caenorhabditis elegans)
    Secernentea Y55F3AM.36
    Protein Y55F3AM.3, isoform a
    41(a)
    1 → many
    IV(1012652-1019558) WBGene00021921
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes NOP136
    RNA156
    Nucleolar protein found in preribosomal complexes;...
    Component of the cleavage and polyadenylation fact...
    19(a)
    18(a)
    many ↔ many
    many ↔ many
    XIV(307401-308612) YNL175C
    VII(416146-417036) YGL044C
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G169401 AT2G16940 54.17(n)
    48.91(a)
      816197  NM_001202608.1  NP_001189537.1 
    rice
    (Oryza sativa)
    Liliopsida Os.249322 Oryza sativa (japonica cultivar-group) cDNA cloneJ more 73.48(n)    AK067419.1 


    ENSEMBL Gene Tree for RBM39 (if available)
    TreeFam Gene Tree for RBM39 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for RBM39 gene
    RBM232  
    11 SIMAP similar genes for RBM39 using alignment to 14 protein entries:     RBM39_HUMAN (see all proteins):
    DKFZp686C17209    DKFZp781I1140    DKFZp781C0423    DKFZp686A11192    RBM23    RNPC4
    A1CF    RBM3    RBM38    PABPC4    HNRNPA1

    Find genes that share paralogs with RBM39           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for RBM39
    PGOHUM00000241725


    (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 RBM39 (see all 998)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs114688951,2
    C--31094381(+) TCTCAAAAT/-  
            
    AAATA
    7 -- int11Minor allele frequency- -:0.50CSA 2
    rs114770021,2
    C--31095153(+) AAAAAC/AAAACA 7 -- int1 trp31Minor allele frequency- A:0.00WA 2
    rs60605861,2
    C,A,H--31095155(+) AAAAAC/AACACA 7 -- int1 trp32Minor allele frequency- A:0.00WA CSA 3
    rs111672731,2
    C--31101413(+) CACCT-/AAATTG 7 -- int11Minor allele frequency- A:0.00NA 2
    rs2010741131,2
    C--31101413(+) CACCTA/TAATTG 7 -- int10--------
    rs2010753781,2
    C--34293709(+) AAAAA-/AGTTAA 7 -- int10--------
    rs591425121,2
    C--34294474(+) TATAA-/ATATGAT 7 -- int10--------
    rs1843940801,2
    C--34294529(+) AACAGC/TTGAAG 7 -- ds50010--------
    rs1887854841,2
    --34294584(+) AAAGCA/TCAAAA 7 -- ds50010--------
    rs60605701,2
    C,F,H--34294630(+) ATATTA/CATATA 7 -- ds500119Minor allele frequency- C:0.19NS EA NA WA CSA 2344

    HapMap Linkage Disequilibrium report for RBM39 (34291531 - 34330258 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for RBM39:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv526188CNV Gain19592680

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing RBM39
    DNA2.0 Custom Variant and Variant Library Synthesis for RBM39

    (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.)
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    OMIM gene information: 604739    OMIM disorders: --

    1 disease for RBM39:    
    About MalaCards
    hepatocellular carcinoma


    Find genes that share disorders with RBM39           About GenesLikeMe

    Human Genome Epidemiology (HuGE) Navigator: RBM39 (1 document)

    Export disorders for RBM39 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)
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    PubMed articles for RBM39 gene, integrated from 10 sources (see all 72):
    (articles sorted by number of sources associating them with RBM39)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Novel nuclear autoantigen with splicing factor motifs identified with antibody from hepatocellular carcinoma. (PubMed id 8227358)1, 2, 3 Imai H.... Tan E.M. (J. Clin. Invest. 1993)
    2. The origins, evolution, and functional potential of alternative splicing in vertebrates. (PubMed id 21551269)1, 3 Mudge J.M....Harrow J. (Mol. Biol. Evol. 2011)
    3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    4. A novel SR-related protein is required for the second step of pre- mRNA splicing. (PubMed id 15798186)1, 2 Cazalla D.... Caceres J.F. (Mol. Cell. Biol. 2005)
    5. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)1, 2 Deloukas P....Rogers J. (Nature 2001)
    6. Solubility-based genetic screen identifies RING finger protein 126 as an E3 ligase for activation-induced cytidine deaminase. (PubMed id 23277564)1 Delker R.K....Papavasiliou F.N. (Proc. Natl. Acad. Sci. U.S.A. 2013)
    7. Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS. (PubMed id 23455922)1 Varjosalo M....Superti-Furga G. (Nat. Methods 2013)
    8. The protein interaction landscape of the human CMGC kinase group. (PubMed id 23602568)1 Varjosalo M....Gstaiger M. (Cell Rep 2013)
    9. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (Cell 2012)
    10. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (Sci Signal 2012)

    (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: 9584 HGNC: 15923 AceView: RNPC2 Ensembl:ENSG00000131051 euGenes: HUgn9584
    ECgene: RBM39 H-InvDB: RBM39

    (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 RBM39 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 RBM39 gene:
    Search GeneIP for patents involving RBM39

    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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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