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

LRRC58 Gene

protein-coding   GIFtS: 41
GCID: GC03M120043

Leucine Rich Repeat Containing 58

Microbiology & Infectious Diseases Congress
  Search for LRRC58
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Leucine Rich Repeat Containing 581 2
Leucine-Rich Repeat-Containing Protein 582

External Ids:    HGNC: 269681   Entrez Gene: 1160642   Ensembl: ENSG000001634287   UniProtKB: Q96CX63   

Export aliases for LRRC58 gene to outside databases

Previous GC identifers: GC03M121532 GC03M117419


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

GeneCards Summary for LRRC58 Gene: 
LRRC58 (leucine rich repeat containing 58) is a protein-coding gene. An important paralog of this gene is LRR1.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000003.11  NC_018914.2  NT_005612.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the LRRC58 gene promoter:
         TBP   ER-alpha   NF-1/L   Pax-5   AML1a   Pax-2   Pax-2a   Nkx2-5   Zic3   ATF6   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for LRRC58

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LRRC58


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

Entrez Gene cytogenetic band: 3q13.33   Ensembl cytogenetic band:  3q13.33   HGNC cytogenetic band: 3q13.33

LRRC58 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LRRC58 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M120043:  view genomic region     (about GC identifiers)

Start:
120,043,356 bp from pter      End:
120,068,186 bp from pter
Size:
24,831 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: LRC58_HUMAN, Q96CX6 (See protein sequence)
Recommended Name: Leucine-rich repeat-containing protein 58  
Size: 371 amino acids; 40586 Da
Sequence caution: Sequence=AAH13757.1; Type=Erroneous initiation;

Explore the universe of human proteins at neXtProt for LRRC58: NX_Q96CX6

Explore proteomics data for LRRC58 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q96CX6

  • LRRC58 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    LRRC58 Protein Expression
    REFSEQ proteins: NP_001093148.1  
    ENSEMBL proteins: 
     ENSP00000295628  

    Human Recombinant Protein Products for LRRC58: 
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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    3 InterPro protein domains:
     IPR001611 Leu-rich_rpt
     IPR025875 Leu-rich_rpt_4
     IPR003591 Leu-rich_rpt_typical-subtyp

    Graphical View of Domain Structure for InterPro Entry Q96CX6

    ProtoNet protein and cluster: Q96CX6

    1 Blocks protein domain: IPB001611 Leucine-rich repeat signature

    UniProtKB/Swiss-Prot: LRC58_HUMAN, Q96CX6
    Similarity: Contains 9 LRR (leucine-rich) repeats


    LRRC58 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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    LRRC58 for ontologies           About GeneDecksing


    Animal Models:
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    (Pathways according to EMD Millipore, 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 SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for LRRC58

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

    1 Interacting protein for LRRC58 (ENSP000002956284) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for LRRC58 (LRC58)

    Search CenterWatch for drugs/clinical trials and news about LRRC58 / LRC58

    (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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for LRRC58 gene: 
    NM_001099678.1  

    Unigene Cluster for LRRC58:

    Leucine rich repeat containing 58
    Hs.518084  [show with all ESTs]
    Unigene Representative Sequence: NM_001099678
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000295628(uc003edr.2)
    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
    Products:
         
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    8/68 QIAGEN miScript miRNA Assays for microRNAs that regulate LRRC58 (see all 68):
    hsa-miR-411* hsa-miR-607 hsa-miR-3607-3p hsa-miR-300 hsa-miR-15a hsa-miR-30d hsa-miR-30a hsa-miR-629*
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for LRRC58
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LRRC58
    Clone
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    OriGene clones in human, mouse for LRRC58 (see all 7)
    OriGene ORF clones in mouse, rat for LRRC58
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: LRRC58 (NM_001099678)
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                         Customized lentivirus expression plasmids for stable overexpression of LRRC58 
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LRRC58

    Additional mRNA sequence: 

    AK056809.1 BC013757.1 

    11 DOTS entries:

    DT.91984466  DT.438766  DT.120894551  DT.95261304  DT.95371962  DT.100753298  DT.100690159  DT.120894538 
    DT.120894547  DT.100690163  DT.102821020 

    24/212 AceView cDNA sequences (see all 212):

    BI850467 CN485155 BM463695 AA253352 AK056809 BU509515 BM668524 CB136045 
    BQ674842 CB857894 AI678945 AI023108 AI422588 CB151865 BU682531 BM449935 
    BF969954 CB164298 AL134949 AI821196 BX114423 BM555307 AW296328 AA491033 

    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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    LRRC58 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ATTCAACAAT
    LRRC58 Expression
    About this image


    See LRRC58 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for LRRC58

    SOURCE GeneReport for Unigene cluster: Hs.518084
        SABiosciences Custom PCR Arrays for LRRC58
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC58

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for LRRC58 gene from 7/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Lrrc581 , 5 leucine rich repeat containing 581, 5 89.07(n)1
    94.54(a)1
      16 (26.49 cM)5
    3201841  NM_177093.31  NP_796067.21 
     378683895 
    chicken
    (Gallus gallus)
    Aves LRRC581 leucine rich repeat containing 58 76.84(n)
    82.35(a)
      418332  XM_416555.3  XP_416555.3 
    lizard
    (Anolis carolinensis)
    Reptilia LRRC586
    Uncharacterized protein
    78(a)
    1 ↔ 1
    GL343326.1(193629-200296)
    African clawed frog
    (Xenopus laevis)
    Amphibia LOC3984622 hypothetical protein LOC398462 74.74(n)    BC041309.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5643001 leucine-rich repeat-containing protein 58-like 61.72(n)
    62.21(a)
      564300  XM_680780.5  XP_685872.2 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG326871 CG32687 51.78(n)
    48.13(a)
      31980  NM_167233.1  NP_727428.1 
    worm
    (Caenorhabditis elegans)
    Secernentea Y42G9A.31 Protein Y42G9A.3 47.03(n)
    50.49(a)
      175865  NM_001027693.4  NP_001022864.1 


    ENSEMBL Gene Tree for LRRC58 (if available)
    TreeFam Gene Tree for LRRC58 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for LRRC58 gene
    LRR12  

    LRRC58 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/515 SNPs in LRRC58 are shown (see all 515)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1875245861,2
    --120043115(+) ATAATA/GGCACT 1 -- ds50010--------
    rs67826131,2
    C,F,H--120043127(+) TAAAAT/CATTGG 1 -- ds50015Minor allele frequency- C:0.02NS EA WA 536
    rs1383173561,2
    --120043277(+) GTAAGA/TCTATT 1 -- ds50010--------
    rs1919918901,2
    --120043413(+) GGCAAA/CTATCA 1 -- ds50010--------
    rs563410741,2
    C--120043470(+) TTATTA/GAAATA 1 -- ds50010--------
    rs1856802181,2
    --120043536(+) TTGTAC/TGTCCT 1 -- ds50010--------
    rs1906869621,2
    --120043579(+) TAGCCC/TATATA 1 -- ut310--------
    rs1930524291,2
    --120043582(+) CCCATA/GTATTC 1 -- ut310--------
    rs1844989841,2
    --120043648(+) AACAAA/TAACTT 1 -- ut310--------
    rs1163891311,2
    C,F--120043730(+) TATCTA/GTAGAT 1 -- ut311Minor allele frequency- G:0.03WA 118

    HapMap Linkage Disequilibrium report for LRRC58 (120043356 - 120068186 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for LRRC58:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv3968CNV Loss18451855
    nsv236293CNV Loss16902084
    nsv877376CNV Gain21882294
    nsv829698CNV Gain17160897

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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.)
    About This Section

    LRRC58 for disorders           About MalaCards

    LRRC58 for disorders           About GeneDecksing

    Genetic Association Database (GAD): LRRC58

    Export disorders for LRRC58 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for LRRC58 gene, integrated from 9 sources (see all 18):
    (articles sorted by number of sources associating them with LRRC58)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Proteome-wide identification of ubiquitylation sites b y conjugation of engineered lysine-less ubiquitin. (PubMed id 22053931)1 Oshikawa K....Nakayama K.I. (2012)
    2. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)1 Povlsen L.K....Choudhary C. (2012)
    3. The genetic architecture of economic and political pre ferences. (PubMed id 22566634)1 Benjamin D.J....Visscher P.M. (2012)
    4. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    5. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    6. Genomewide association study for determinants of HIV-1 acquisition and viral set point in HIV-1 serodiscordant couples with quantified virus exposure. (PubMed id 22174851)1 Lingappa J.R....Goldstein D. (2011)
    7. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    8. Ubiquitin ligase substrate identification through qua ntitative proteomics at both the protein and peptide levels. (PubMed id 21987572)1 Lee K.A....Doedens J.R. (2011)
    9. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    10. Global identification of modular cullin-RING ligase su bstrates. (PubMed id 21963094)1 Emanuele M.J....Elledge S.J. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 116064 HGNC: 26968 AceView: LOC116064 Ensembl:ENSG00000163428 euGenes: HUgn116064
    ECgene: LRRC58 H-InvDB: LRRC58

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for LRRC58 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for LRRC58 gene:
    Search GeneIP for patents involving LRRC58

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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