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RANBP3L Gene

protein-coding   GIFtS: 41
GCID: GC05M036286

RAN Binding Protein 3-Like

  See 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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Aliases
RAN Binding Protein 3-Like1 2
Ran-Binding Protein 3-Like2

External Ids:    HGNC: 263531   Entrez Gene: 2021512   Ensembl: ENSG000001641887   UniProtKB: Q86VV43   

Export aliases for RANBP3L gene to outside databases


(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 RANBP3L Gene:
RANBP3L (RAN binding protein 3-like) is a protein-coding gene. Diseases associated with RANBP3L include choroiditis. An important paralog of this gene is RANBP3.


(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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Regulatory elements:
   Regulatory transcription factor binding sites in the RANBP3L gene promoter:
         HOXA9B   HOXA9   Max1   Olf-1   Tal-1beta   GATA-1   FOXO4   ITF-2   MRF-2   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRANBP3L promoter sequence
   Search Chromatin IP Primers for RANBP3L

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RANBP3L


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

Entrez Gene cytogenetic band: 5p13.2   Ensembl cytogenetic band:  5p13.2   HGNC cytogenetic band: 5p13.2

RANBP3L Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RANBP3L gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05M036286:  view genomic region     (about GC identifiers)

Start:
36,248,536 bp from pter      End:
36,302,216 bp from pter
Size:
53,681 bases      Orientation:
minus 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: RNB3L_HUMAN, Q86VV4 (See protein sequence)
Recommended Name: Ran-binding protein 3-like  
Size: 465 amino acids; 52211 Da
Secondary accessions: B7Z866 E9PGP9 Q96LK2
Alternative splicing: 3 isoforms:  Q86VV4-1   Q86VV4-2   Q86VV4-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for RANBP3L: NX_Q86VV4

Explore proteomics data for RANBP3L at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See RANBP3L Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001154901.1  NP_659437.3  

    ENSEMBL proteins: 
     ENSP00000296604   ENSP00000421853   ENSP00000421149   ENSP00000427147  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    2 InterPro protein domains:
     IPR000156 Ran_bind_dom
     IPR011993 PH_like_dom

    Graphical View of Domain Structure for InterPro Entry Q86VV4

    ProtoNet protein and cluster: Q86VV4

    1 Blocks protein domain: IPB000156 RanBP1 domain

    UniProtKB/Swiss-Prot: RNB3L_HUMAN, Q86VV4
    Similarity: Contains 1 RanBD1 domain


    RANBP3L for domains           About GeneDecksing


    (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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Phenotypes:
         1 GenomeRNAi human phenotype for RANBP3L:
     Decreased nuclei size in G2M 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for RANBP3L
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    hsa-miR-3662 hsa-miR-3674
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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 COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol2
    mitochondrion1

    (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 RANBP3L
    Interactions:

        Search GeneGlobe Interaction Network for RANBP3L

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0046907intracellular transport IEA--

    RANBP3L for ontologies           About GeneDecksing



    (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
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    Browse Tocris compounds for RANBP3L (RNB3L)



    (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,
    Conferences by KenesGroup, 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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for RANBP3L gene (2 alternative transcripts): 
    NM_001161429.1  NM_145000.3  

    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000296604(uc011cow.2 uc003jkh.3) ENST00000502994 ENST00000515759
    ENST00000505865
    miRNA
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    hsa-miR-3662 hsa-miR-3674
    SwitchGear 3'UTR luciferase reporter plasmidRANBP3L 3' UTR sequence
    Inhib. RNA
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      QuantiTect SYBR Green Assays in human, mouse, rat RANBP3L
      QuantiFast Probe-based Assays in human, mouse, rat RANBP3L

    18 AceView cDNA sequences:

    CD106241 NM_145000 BC047660 AK058151 BG431086 BC017951 BI546897 AI675431 
    BX115384 AL119068 BG400002 BF674230 BG723201 BM544392 BG699548 AI783603 
    BP369917 BF366785 

    GeneLoc Exon Structure


    (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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    RANBP3L expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    RANBP3L Expression
    About this image


    RANBP3L expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Brain (Nervous System)
             Choroid Plexus Progenitor Cells Choroid Plexus
    RANBP3L Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    RANBP3L Protein Expression
        Custom PCR Arrays for RANBP3L
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RANBP3L

    (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 RANBP3L gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ranbp3l1 , 5 RAN binding protein 3-like1, 5 78.85(n)1
    71.05(a)1
      15 (3.82 cM)5
    2233321  NM_198024.21  NP_932141.11 
     89684265 
    chicken
    (Gallus gallus)
    Aves RANBP3L1 RAN binding protein 3-like 66.26(n)
    58.85(a)
      770629  XM_001233966.3  XP_001233967.3 
    lizard
    (Anolis carolinensis)
    Reptilia RANBP3L6
    RAN binding protein 3-like
    44(a)
    1 ↔ 1
    GL343241.1(1491813-1505912)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ069349.12   -- 79.41(n)    BJ069349.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta RanBP36
    Ran binding protein 3
    20(a)
    1 → many
    3R(19576659-19578552)
    worm
    (Caenorhabditis elegans)
    Secernentea ran-56
    Protein RAN-5 (ran-5) mRNA, complete cds
    18(a)
    1 → many
    II(6048109-6049694) WBGene00004306


    ENSEMBL Gene Tree for RANBP3L (if available)
    TreeFam Gene Tree for RANBP3L (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for RANBP3L gene
    RANBP32  
    1 SIMAP similar gene for RANBP3L using alignment to 2 protein entries:     RNB3L_HUMAN (see all proteins):
    RANBP3

    RANBP3L for paralogs           About GeneDecksing



    (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 RANBP3L (see all 1159)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 5 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs131755361,2
    C,F,H--36248632(+) CCAAAC/TGAATA 2 -- int119Minor allele frequency- T:0.47NS EA NA CSA WA 2344
    rs77222511,2
    C,F,A,H--36248752(+) TCAGAG/TAATTG 2 -- int121Minor allele frequency- T:0.23NS EA NA WA CSA 2345
    rs1919304611,2
    --36248817(+) GAAAAA/GTGAAA 2 -- int10--------
    rs1830425821,2
    --36248984(+) CATATC/GATACA 2 -- int10--------
    rs1866685171,2
    --36249075(+) TTGGCA/TTTCTT 2 -- int10--------
    rs1911274651,2
    --36249143(+) TATTGA/GATGCT 2 -- ut310--------
    rs1493387691,2
    C--36249172(+) GACAAC/GATGCA 2 -- ut310--------
    rs14232261,2
    C,F,A,H--36249301(-) TTCACA/G/TAAATC 4 -- ut31 ese321NS EA NA WA CSA 1247
    rs104730031,2
    C,F,H--36249328(+) ATACTA/GTTTTT 2 -- ut315Minor allele frequency- G:0.07NS EA WA 532
    rs1840460681,2
    --36249507(+) AATAAA/TCTTCT 2 -- ut310--------

    HapMap Linkage Disequilibrium report for RANBP3L (36248536 - 36302216 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for RANBP3L:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2730076CNV Deletion23290073
    esv2730077CNV Deletion23290073
    nsv830262CNV Gain17160897
    nsv881598CNV Gain21882294

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    1 disease for RANBP3L:    
    About MalaCards
    choroiditis


    RANBP3L for disorders           About GeneDecksing

    Genetic Association Database (GAD): RANBP3L

    Export disorders for RANBP3L 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 RANBP3L gene integrated from 10 sources:
    (articles sorted by number of sources associating them with RANBP3L)
        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. Impact of four loci on serum tamsulosin hydrochloride concentration. (PubMed id 23151678)1 Takata R....Nakamura Y. (J. Hum. Genet. 2013)
    3. Identification, replication, and fine-mapping of Loci associated with adult height in individuals of african ancestry. (PubMed id 21998595)4 N'Diaye A....Haiman C.A. (PLoS Genet. 2011)
    4. 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)
    5. Genome-wide association to body mass index and waist circumference: the Framingham Heart Study 100K project. (PubMed id 17903300)4 Fox C.S....Atwood L.D. (BMC Med. Genet. 2007)
    6. 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)
    7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (Nat. Genet. 2004)
    8. The DNA sequence and comparative analysis of human chromosome 5. (PubMed id 15372022)2 Schmutz J.... Rubin E.M. (Nature 2004)

    (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: 202151 HGNC: 26353 AceView: FLJ25422 Ensembl:ENSG00000164188 euGenes: HUgn202151
    ECgene: RANBP3L H-InvDB: RANBP3L

    (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 RANBP3L 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 RANBP3L gene:
    Search GeneIP for patents involving RANBP3L

    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, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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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