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RBM46 Gene

protein-coding   GIFtS: 45
GCID: GC04P155702

RNA Binding Motif Protein 46

  Search for RBM46
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
RNA Binding Motif Protein 461 2
Cancer/Testis Antigen 681 2 3
CT682 3
RNA-Binding Motif Protein 462 3
Probable RNA-Binding Protein 462

External Ids:    HGNC: 284011   Entrez Gene: 1668632   Ensembl: ENSG000001519627   UniProtKB: Q8TBY03   

Export aliases for RBM46 gene to outside databases

Previous GC identifers: GC04P155922 GC04P151443


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for RBM46 Gene:
RBM46 (RNA binding motif protein 46) is a protein-coding gene. GO annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is SYNCRIP.


(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_000004.11  NT_016354.20  NC_018915.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the RBM46 gene promoter:
         NF-YB   CBF-B   CBF-A   AML1a   NF-YA   c-Myb   CP1C   CP1A   NF-Y   CBF-C   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRBM46 promoter sequence
   Search Chromatin IP Primers for RBM46

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RBM46


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

Entrez Gene cytogenetic band: 4q32.1   Ensembl cytogenetic band:  4q32.1   HGNC cytogenetic band: 4q32.1

RBM46 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RBM46 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P155702:  view genomic region     (about GC identifiers)

Start:
155,702,365 bp from pter      End:
155,749,965 bp from pter
Size:
47,601 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, 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: RBM46_HUMAN, Q8TBY0 (See protein sequence)
Recommended Name: Probable RNA-binding protein 46  
Size: 533 amino acids; 60023 Da

Explore the universe of human proteins at neXtProt for RBM46: NX_Q8TBY0

Explore proteomics data for RBM46 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See RBM46 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001264100.1  NP_001264102.1  NP_659416.1  

    ENSEMBL proteins: 
     ENSP00000424500   ENSP00000281722   ENSP00000422813   ENSP00000426672  

    RBM46 Human Recombinant Protein Products:

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    Search eBioscience for ELISAs for RBM46 


    (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:
     IPR012677 Nucleotide-bd_a/b_plait
     IPR006535 HnRNP_R/Q_splicing_fac
     IPR000504 RRM_dom

    Graphical View of Domain Structure for InterPro Entry Q8TBY0

    ProtoNet protein and cluster: Q8TBY0

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

    UniProtKB/Swiss-Prot: RBM46_HUMAN, Q8TBY0
    Similarity: Contains 3 RRM (RNA recognition motif) domains


    Find genes that share domains with RBM46           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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         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003723RNA binding IEA--
         
    Find genes that share ontologies with RBM46           About GenesLikeMe


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for RBM46
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    miRNA
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    miRTarBase miRNAs that target RBM46:
    hsa-mir-335-5p (MIRT018031)

    Block miRNA regulation of human, mouse, rat RBM46 using miScript Target Protectors
    4 qRT-PCR Assays for microRNAs that regulate RBM46:
    hsa-miR-26a hsa-miR-362-5p hsa-miR-26b hsa-miR-1297
    SwitchGear 3'UTR luciferase reporter plasmidRBM46 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat RBM46

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RBM46


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol1
    peroxisome1

    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for RBM46
    Interactions:

        Search GeneGlobe Interaction Network for RBM46

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for RBM46 (ENSP000002817224) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CASC3ENSP000002646454STRING: ENSP00000264645
    About this table

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

    Browse Tocris compounds for RBM46



    (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 RBM46 gene (3 alternative transcripts): 
    NM_001277171.1  NM_001277173.1  NM_144979.4  

    Unigene Cluster for RBM46:

    RNA binding motif protein 46
    Hs.133095  [show with all ESTs]
    Unigene Representative Sequence: AK125877
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000514866 ENST00000281722(uc003ioo.3) ENST00000510397(uc011cim.1 uc003iop.1)
    ENST00000512640
    miRNA
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    4 qRT-PCR Assays for microRNAs that regulate RBM46:
    hsa-miR-26a hsa-miR-362-5p hsa-miR-26b hsa-miR-1297
    SwitchGear 3'UTR luciferase reporter plasmidRBM46 3' UTR sequence
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for RBM46
    Predesigned siRNA for gene silencing in human, mouse, rat RBM46
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RBM46
    Primer
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    OriGene qPCR primer pairs and template standards for RBM46
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat RBM46
      QuantiTect SYBR Green Assays in human, mouse, rat RBM46
      QuantiFast Probe-based Assays in human, mouse, rat RBM46

    Additional mRNA sequence: 

    AK125877.1 AK302720.1 BC028588.2 

    4 DOTS entries:

    DT.206596  DT.75167736  DT.100661454  DT.121267978 

    23 AceView cDNA sequences:

    AA927771 NM_144979 BC028588 AA927777 BF223063 BX109509 AK125877 AW594396 
    CD244186 AA934358 AI024943 BU854576 AI635588 BG722217 BI460825 BU569215 
    BF980344 AW182057 BI462693 AA931126 X85679 BI459760 BG037096 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for RBM46    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8 ^ 9
    SP1:        -     -                                   -     -         
    SP2:              -                                   -               
    SP3:                                                                  
    SP4:                                                                  


    ECgene alternative splicing isoforms for RBM46

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    RBM46 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    RBM46 Expression
    About this image


    RBM46 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 3) fully expand
     
     Ovary (Reproductive System)
             XX Germ Cells Ovigerous Cord
     
     Gonad
             XX Germ Cells Ovigerous Cord
     
     Testis (Reproductive System)
    RBM46 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    RBM46 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.133095
        Custom PCR Arrays for RBM46
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RBM46

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for RBM46 gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rbm461 , 5 RNA binding motif protein 461, 5 90.46(n)1
    97.44(a)1
      3 (36.75 cM)5
    6332851  NM_001277170.11  NP_001264099.11 
     828372285 
    chicken
    (Gallus gallus)
    Aves RBM461 RNA binding motif protein 46 79.13(n)
    79.91(a)
      422404  XM_004940895.1  XP_004940952.1 
    lizard
    (Anolis carolinensis)
    Reptilia RBM466
    RNA binding motif protein 46
    92(a)
    1 ↔ 1
    5(130107871-130124478)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.195332 Transcribed sequence with weak similarity to protein more 80.81(n)    BX780439.1 
    zebrafish
    (Danio rerio)
    Actinopterygii wufe11d092 Transcribed sequence with weak similarity to protein more 74.01(n)    57060338 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG178386
    --
    25(a)
    1 → many
    3R(16582451-16631963)
    worm
    (Caenorhabditis elegans)
    Secernentea hrp-26
    Protein HRP-2, isoform a (hrp-2) mRNA, complete cd...
    26(a)
    1 → many
    I(12060276-12064897) WBGene00002000


    ENSEMBL Gene Tree for RBM46 (if available)
    TreeFam Gene Tree for RBM46 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for RBM46 gene
    SYNCRIP2  RBM472  DND12  A1CF2  HNRNPR2  
    7 SIMAP similar genes for RBM46 using alignment to 4 protein entries:     RBM46_HUMAN (see all proteins):
    RBM47    A1CF    HNRPR    SYNCRIP    DKFZp686A13234    HNRNPR
    DND1

    Find genes that share paralogs with RBM46           About GenesLikeMe



    (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 RBM46 (see all 875)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1429968811,2
    --155700539(+) TCTCAC/TCTATG 2 -- us2k10--------
    rs1808798761,2
    --155700593(+) TGTCTA/GTTTGG 2 -- us2k10--------
    rs1113615691,2
    C,F--155700658(+) ATGTTC/TAACAA 3 -- us2k11Minor allele frequency- T:0.50CSA 2
    rs170320521,2
    C,F,H--155700796(+) TTTCAG/CATAAT 3 -- us2k1 tfbs320Minor allele frequency- C:0.06NA NS EA WA 1954
    rs797913731,2
    C,F--155700815(+) AAACAC/TATGTA 3 -- us2k11Minor allele frequency- T:0.19WA 118
    rs76860021,2
    C,F,H--155700846(+) ATTGAG/AAAGGT 3 -- us2k116Minor allele frequency- A:0.13NS EA NA WA 2024
    rs1857057831,2
    --155701193(+) TTTCAA/TACTGG 3 -- us2k10--------
    rs119408921,2
    C,F,H--155701520(+) TTGAAT/CATATG 3 -- us2k1 tfbs319Minor allele frequency- C:0.16NS EA NA WA 2344
    rs785381871,2
    F--155701686(+) TAATAT/CTATCT 3 -- us2k11Minor allele frequency- C:0.02WA 118
    rs594237721,2
    F--155701843(+) AGAACC/GCAGTT 3 -- us2k11Minor allele frequency- G:0.02WA 118

    HapMap Linkage Disequilibrium report for RBM46 (155702365 - 155749965 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for RBM46:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv820098CNV Gain19587683

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing RBM46
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    (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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    Find genes that share disorders with RBM46           About GenesLikeMe

    Genetic Association Database (GAD): RBM46

    Export disorders for RBM46 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 RBM46 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with RBM46)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    2. A genome-wide association for kidney function and endocrine-related traits in the NHLBI's Framingham Heart Study. (PubMed id 17903292)4 Hwang S.J....Fox C.S. (BMC Med. Genet. 2007)
    3. A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study. (PubMed id 17903299)4 Kathiresan S....Cupples L.A. (BMC Med. Genet. 2007)
    4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    6. (PubMed id )2 

    (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: 166863 HGNC: 28401 AceView: MGC27016 Ensembl:ENSG00000151962 euGenes: HUgn166863
    ECgene: RBM46 H-InvDB: RBM46

    (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 RBM46 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 RBM46 gene:
    Search GeneIP for patents involving RBM46

    GeneCards and IP:
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    (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
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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     OriGene Antibodies for RBM46   OriGene RNAi products in human, mouse, rat for RBM46  
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     Block miRNA regulation of human, mouse, rat RBM46 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing RBM46
     DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RBM46 Predesigned siRNA for gene silencing in human, mouse, rat RBM46
     QuantiFast Probe-based Assays in human, mouse, rat RBM46 QuantiTect SYBR Green Assays in human, mouse, rat RBM46
     Custom PCR Arrays for RBM46 Search Chromatin IP Primers for RBM46
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     Novus Tissue Slides
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     Browse ESI BIO Cell Lines and PureStem Progenitors for RBM46
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     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RBM46
     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for RBM46
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     Search Addgene for plasmids for RBM46
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      Search eBioscience for elisas for RBM46
      eBioscience FlowRNA Probe Sets
           
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