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RBM27 Gene

protein-coding   GIFtS: 50
GCID: GC05P145563

RNA Binding Motif Protein 27

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(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 271 2     Psc12
Acidic Rich RS Domain Containing 11 2     ZC3H182
RNA-Binding Motif Protein 272 3     RNA-Binding Protein 272
ARRS12     KIAA13113

External Ids:    HGNC: 292431   Entrez Gene: 544392   Ensembl: ENSG000000910097   UniProtKB: Q9P2N53   

Export aliases for RBM27 gene to outside databases

Previous GC identifers: GC05P145613 GC05U900595 GC05P141098


(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 RBM27 Gene:
RBM27 (RNA binding motif protein 27) is a protein-coding gene. GO annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is RBM26.


(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_000005.9  NT_029289.12  NC_018916.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the RBM27 gene promoter:
         c-Fos   AP-2rep   SRF   AP-1   MAZR   SRF (504 AA)   MZF-1   CP2   LyF-1   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRBM27 promoter sequence
   Search Chromatin IP Primers for RBM27

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RBM27


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

Entrez Gene cytogenetic band: 5q32   Ensembl cytogenetic band:  5q32   HGNC cytogenetic band: 5q32

RBM27 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RBM27 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05P145563:  view genomic region     (about GC identifiers)

Start:
145,583,113 bp from pter      End:
145,718,814 bp from pter
Size:
135,702 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: RBM27_HUMAN, Q9P2N5 (See protein sequence)
Recommended Name: RNA-binding protein 27  
Size: 1060 amino acids; 118718 Da
Secondary accessions: Q8IYW9

Explore the universe of human proteins at neXtProt for RBM27: NX_Q9P2N5

Explore proteomics data for RBM27 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys653
  • Modification sites at PhosphoSitePlus

  • See RBM27 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_061862.1  
    ENSEMBL proteins: 
     ENSP00000475384   ENSP00000265271  

    RBM27 Human Recombinant Protein Products:

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    antibodies-online kits for RBM27 (4 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    ZC3H: Zinc fingers, CCCH-type domain containing
    RBM: RNA binding motif (RRM) containing

    4 InterPro protein domains:
     IPR000571 Znf_CCCH
     IPR002483 PWI_dom
     IPR012677 Nucleotide-bd_a/b_plait
     IPR000504 RRM_dom

    Graphical View of Domain Structure for InterPro Entry Q9P2N5

    ProtoNet protein and cluster: Q9P2N5

    2 Blocks protein domains:
    IPB000504 RNA-binding region RNP-1 (RNA recognition motif)
    IPB000571 Zn-finger


    UniProtKB/Swiss-Prot: RBM27_HUMAN, Q9P2N5
    Domain: The RRM domain mediates integration into cytospeckles (By similarity)
    Similarity: Contains 1 C3H1-type zinc finger
    Similarity: Contains 1 RRM (RNA recognition motif) domain


    Find genes that share domains with RBM27           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003723RNA binding ----
    GO:0044822poly(A) RNA binding IDA--
    GO:0046872metal ion binding IEA--
         
    Find genes that share ontologies with RBM27           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for RBM27:
     Increased gamma-H2AX phosphory 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for RBM27

    miRNA
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    miRTarBase miRNAs that target RBM27:
    hsa-mir-92a-3p (MIRT049845), hsa-mir-15b-5p (MIRT046520), hsa-mir-1226-3p (MIRT036468), hsa-mir-186-5p (MIRT045304), hsa-mir-25-3p (MIRT050363)

    Block miRNA regulation of human, mouse, rat RBM27 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate RBM27 (see all 53):
    hsa-miR-323-3p hsa-miR-642a hsa-miR-607 hsa-miR-4272 hsa-miR-25 hsa-miR-605 hsa-miR-374a hsa-miR-3653
    SwitchGear 3'UTR luciferase reporter plasmidRBM27 3' UTR sequence
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    (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
    RBM27_HUMAN, Q9P2N5: Cytoplasm. Nucleus speckle. Note=Incorporated into the nuclear speckles and to speckles
    proximal to the nuclear periphery. Also localizes to punctate structures in the cytoplasm termed cytospeckles (By
    similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2

    Gene Ontology (GO): 4 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IEA--
    GO:0016607nuclear speck IEA--

    Find genes that share ontologies with RBM27           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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for RBM27
    Interactions:

        Search GeneGlobe Interaction Network for RBM27

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    5 Interacting proteins for RBM27 (Q9P2N53 ENSP000002652714) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PABPN1Q86U423, ENSP000002167274I2D: score=4 STRING: ENSP00000216727
    UBCP0CG483, ENSP000003448184I2D: score=1 STRING: ENSP00000344818
    BECN1Q144573I2D: score=1 
    PABPN1LENSP000003676094STRING: ENSP00000367609
    RNPS1ENSP000003158594STRING: ENSP00000315859
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006397mRNA processing IEA--

    Find genes that share ontologies with RBM27           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 RBM27



    (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 RBM27 gene: 
    NM_018989.1  

    Unigene Cluster for RBM27:

    RNA binding motif protein 27
    Hs.61441  [show with all ESTs]
    Unigene Representative Sequence: NM_018989
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000506502(uc003lny.2) ENST00000265271(uc003lnz.4) ENST00000508019

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    Selected qRT-PCR Assays for microRNAs that regulate RBM27 (see all 53):
    hsa-miR-323-3p hsa-miR-642a hsa-miR-607 hsa-miR-4272 hsa-miR-25 hsa-miR-605 hsa-miR-374a hsa-miR-3653
    SwitchGear 3'UTR luciferase reporter plasmidRBM27 3' UTR sequence
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      QuantiTect SYBR Green Assays in human, mouse, rat RBM27
      QuantiFast Probe-based Assays in human, mouse, rat RBM27

    Additional mRNA sequence: 

    AB037732.1 AK026358.1 AK074316.1 AK128738.1 AL833706.1 BC009537.1 BC029648.1 BC033524.1 
    BX647384.1 

    5 DOTS entries:

    DT.113725  DT.101980899  DT.95367717  DT.91858442  DT.95357930 

    Selected AceView cDNA sequences (see all 153):

    BF061624 BU170151 AB037732 AW206584 AA761354 AW086076 BU678873 BC029648 
    BC009537 AA046224 AA315431 BE221791 AA292383 BM452783 AK128738 AI671019 
    AA907254 BQ027059 AA737401 AI567164 AI138263 AW572828 BM193935 BM459769 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for RBM27    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20
    SP1:                                                        -                       -                                                   
    SP2:                                                                                                                                    
    SP3:                                                                                                                                    
    SP4:                                                                                                                                    


    ECgene alternative splicing isoforms for RBM27

    (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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    RBM27 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTGACTTTTG
    RBM27 Expression
    About this image

    RBM27 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    RBM27 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.61441
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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)
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    This gene was present in the common ancestor of animals.

    Orthologs for RBM27 gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rbm271 , 5 RNA binding motif protein 271, 5 89.64(n)1
    93.63(a)1
      18 (22.45 cM)5
    2254321  NM_172626.21  NP_766214.21 
     422753535 
    chicken
    (Gallus gallus)
    Aves RBM271 RNA binding motif protein 27 75.66(n)
    80.75(a)
      416348  XM_004945047.1  XP_004945104.1 
    lizard
    (Anolis carolinensis)
    Reptilia RBM276
    RNA binding motif protein 27
    75(a)
    1 ↔ 1
    GL343234.1(592047-637185)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.191402 Transcribed sequence 74.31(n)    BX774354.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.155052 Transcribed sequences 74.18(n)    AL924657.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta swm6
    second mitotic wave missing
    24(a)
    1 → many
    2L(19493251-19497978)
    worm
    (Caenorhabditis elegans)
    Secernentea B0336.36
    Protein B0336.3 (B0336.3) mRNA, complete cds
    27(a)
    1 → many
    III(5711548-5714624) WBGene00015143


    ENSEMBL Gene Tree for RBM27 (if available)
    TreeFam Gene Tree for RBM27 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for RBM27 gene
    RBM262  
    7 SIMAP similar genes for RBM27 using alignment to 3 protein entries:     RBM27_HUMAN (see all proteins):
    POU4F3    UTY    ECD    FANCA    CNOT2    C12orf23
    RBM26

    Find genes that share paralogs with RBM27           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 RBM27 (see all 1640)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 5 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1905281931,2
    --145581230(+) CCACGC/TCCAGC 1 -- us2k10--------
    rs43114711,2
    C--145581235(+) cccagC/Ttaatt 1 -- us2k11Minor allele frequency- T:0.00NA 2
    rs1819694361,2
    --145581335(+) AAAGCC/TCTGGG 1 -- us2k10--------
    rs1423350371,2
    C--145581502(+) GATTAC/TAGGCA 1 -- us2k10--------
    rs1143082841,2
    F--145581516(+) GTCACC/TGTGCC 1 -- us2k12Minor allele frequency- T:0.06WA NA 238
    rs1863971961,2
    --145581529(+) GCCCCA/CCCTTT 1 -- us2k10--------
    rs1899687001,2
    --145581530(+) CCCCCC/TCTTTT 1 -- us2k10--------
    rs77118961,2
    C,F,A--145581548(+) agatgG/Cagttt 1 -- us2k19Minor allele frequency- C:0.32NA WA CSA EA 370
    rs1825691791,2
    --145581753(+) ACCCGC/TCTTGG 1 -- us2k10--------
    rs1884330841,2
    --145582053(+) CTATAC/TCTGTT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for RBM27 (145583113 - 145718814 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for RBM27:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv725n27CNV Loss19166990
    dgv6357n71CNV Loss21882294
    nsv883006CNV Loss21882294
    nsv428128CNV Loss18775914
    dgv6356n71CNV Loss21882294
    nsv517251CNV Loss19592680
    nsv462478CNV Loss19166990
    dgv6355n71CNV Loss21882294
    nsv523502CNV Gain19592680

    Site Specific Mutation Identification with PCR Assays
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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 RBM27           About GenesLikeMe

    Genetic Association Database (GAD): RBM27
    Human Genome Epidemiology (HuGE) Navigator: RBM27 (1 document)

    Export disorders for RBM27 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 RBM27 gene, integrated from 10 sources (see all 20):
    (articles sorted by number of sources associating them with RBM27)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10718198)1, 2, 3 Nagase T.... Ohara O. (DNA Res. 2000)
    2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    3. Proteomic analysis of ubiquitinated proteins in normal hepatocyte cell line Chang liver cells. (PubMed id 18655026)1, 2 Tan F.... Peng X. (Proteomics 2008)
    4. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1, 2 Beausoleil S.A.... Gygi S.P. (Nat. Biotechnol. 2006)
    5. A family of RS domain proteins with novel subcellular localization and trafficking. (PubMed id 15741184)1, 3 Kavanagh S.J....Rathjen P.D. (Nucleic Acids Res. 2005)
    6. 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. (Genome Res. 2004)
    7. The DNA sequence and comparative analysis of human chromosome 5. (PubMed id 15372022)1, 2 Schmutz J.... Rubin E.M. (Nature 2004)
    8. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (Cell 2012)
    9. Shotgun proteomics and network analysis of ubiquitin-related proteins from human breast carcinoma epithelial cells. (PubMed id 21853274)1 Zhou J....Liang S. (Mol. Cell. Biochem. 2012)
    10. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 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)
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    Entrez Gene: 54439 HGNC: 29243 AceView: RBM27 Ensembl:ENSG00000091009 euGenes: HUgn54439
    ECgene: RBM27 H-InvDB: RBM27

    (According to HUGE)
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    HUGE: KIAA1311

    (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 RBM27 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 RBM27 gene:
    Search GeneIP for patents involving RBM27

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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