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

LRRC28 Gene

protein-coding   GIFtS: 42
GCID: GC15P099791

Leucine Rich Repeat Containing 28

  Search for LRRC28
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 281 2
Leucine-Rich Repeat-Containing Protein 282

External Ids:    HGNC: 283551   Entrez Gene: 1233552   Ensembl: ENSG000001689047   UniProtKB: Q86X403   

Export aliases for LRRC28 gene to outside databases

Previous GC identifers: GC15P097527 GC15P097609 GC15P075921


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

GeneCards Summary for LRRC28 Gene: 
LRRC28 (leucine rich repeat containing 28) is a protein-coding gene. An important paralog of this gene is LRRC8E.


(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_000015.9  NT_010274.17  NC_018926.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the LRRC28 gene promoter:
         ER-alpha   SRF   STAT1   SRF (504 AA)   STAT1beta   HSF1 (long)   IRF-1   E47   SRY   HSF1short   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidLRRC28 promoter sequence
   Search SABiosciences Chromatin IP Primers for LRRC28

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LRRC28


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

Entrez Gene cytogenetic band: 15q26.3   Ensembl cytogenetic band:  15q26.3   HGNC cytogenetic band: 15q26.3

LRRC28 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LRRC28 gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15P099791:  view genomic region     (about GC identifiers)

Start:
99,791,567 bp from pter      End:
99,930,934 bp from pter
Size:
139,368 bases      Orientation:
plus 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: LRC28_HUMAN, Q86X40 (See protein sequence)
Recommended Name: Leucine-rich repeat-containing protein 28  
Size: 367 amino acids; 41912 Da
Secondary accessions: A8KA22 Q6UY49 Q6ZSS6
Alternative splicing: 3 isoforms:  Q86X40-1   Q86X40-2   Q86X40-3   (No experimental confirmation available. May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay)

Explore the universe of human proteins at neXtProt for LRRC28: NX_Q86X40

Explore proteomics data for LRRC28 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q86X40

  • LRRC28 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    LRRC28 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001271329.1  NP_653199.2  

    ENSEMBL proteins: 
     ENSP00000453313   ENSP00000304923   ENSP00000453469   ENSP00000452927   ENSP00000452709  
     ENSP00000404520   ENSP00000453504   ENSP00000452863   ENSP00000332035   ENSP00000452785  
     ENSP00000454182   ENSP00000398606   ENSP00000404206  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR003591 Leu-rich_rpt_typical-subtyp

    Graphical View of Domain Structure for InterPro Entry Q86X40

    ProtoNet protein and cluster: Q86X40

    UniProtKB/Swiss-Prot: LRC28_HUMAN, Q86X40
    Similarity: Contains 9 LRR (leucine-rich) repeats


    LRRC28 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 ----
         
    LRRC28 for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for LRRC28 
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    miRNA
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    SwitchGear 3'UTR luciferase reporter plasmidLRRC28 3' UTR sequence
    Inhib. RNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC28


    (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 LRRC28

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

    1 Interacting protein for LRRC28 (ENSP000003049234) 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 LRRC28 (LRC28)

    Search CenterWatch for drugs/clinical trials and news about LRRC28 / LRC28

    (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 LRRC28 gene (2 alternative transcripts): 
    NM_001284400.1  NM_144598.3  

    Unigene Cluster for LRRC28:

    Leucine rich repeat containing 28
    Hs.578684  [show with all ESTs]
    Unigene Representative Sequence: AL833556
    18/24 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 24):
    ENST00000558879 ENST00000301981(uc010urs.1 uc002bva.1 uc002bvb.1 uc010urt.1 uc002bvc.1 uc010uru.1 uc002bvd.1)
    ENST00000559399 ENST00000560213 ENST00000559433 ENST00000558471 ENST00000561253
    ENST00000558500 ENST00000447360 ENST00000558172 ENST00000561276 ENST00000331450
    ENST00000558861 ENST00000558771 ENST00000558248 ENST00000558890 ENST00000559819
    ENST00000559774
    miRNA
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    3 QIAGEN miScript miRNA Assays for microRNAs that regulate LRRC28:
    hsa-miR-3910 hsa-miR-3659 hsa-miR-544
    SwitchGear 3'UTR luciferase reporter plasmidLRRC28 3' UTR sequence
    Inhib. RNA
    Products:
         
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    OriGene ORF clones in mouse, rat for LRRC28
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    GenScript: all cDNA clones in your preferred vector: LRRC28 (NM_144598)
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LRRC28
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LRRC28

    Additional mRNA sequence: 

    AK091588.1 AK127177.1 AK292887.1 AK293832.1 AK295161.1 AK296352.1 AL833556.1 AY358082.1 
    BC019704.1 BC047306.1 

    12 DOTS entries:

    DT.312730  DT.40262514  DT.99944871  DT.99956048  DT.95073158  DT.121068895  DT.121068942  DT.121068899 
    DT.40125116  DT.100782682  DT.100832558  DT.121068964 

    24/139 AceView cDNA sequences (see all 139):

    BX110980 AW769415 AY358082 AA994195 AI677843 BX109249 CD677519 BM718038 
    AI217148 AA334258 BM728736 CR593703 AI912966 BM547483 AI809237 BQ188174 
    AI419434 NM_144598 AA580479 W21176 BP371674 AA777514 CR606315 AI217725 

    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

    LRRC28 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ATTGAGCTTC
    LRRC28 Expression
    About this image


    See LRRC28 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for LRRC28

    SOURCE GeneReport for Unigene cluster: Hs.578684
        SABiosciences Custom PCR Arrays for LRRC28
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC28

    (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 chordates.

    Orthologs for LRRC28 gene from 5/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Lrrc281 , 5 leucine rich repeat containing 281, 5 88.16(n)1
    90.16(a)1
      7 (37.05 cM)5
    678671  NM_175124.51  NP_780333.31 
     675134115 
    chicken
    (Gallus gallus)
    Aves LRRC281 leucine rich repeat containing 28 78.22(n)
    85.4(a)
      415512  NM_001005822.1  NP_001005822.1 
    lizard
    (Anolis carolinensis)
    Reptilia LRRC286
    leucine rich repeat containing 28
    87(a)
    1 ↔ 1
    GL343383.1(338680-370840)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.41162 Transcribed sequence with weak similarity to protein more 74.81(n)    142004289 
    zebrafish
    (Danio rerio)
    Actinopterygii lrrc281 leucine rich repeat containing 28 67.95(n)
    70.33(a)
      555592  XM_678142.5  XP_683234.5 


    ENSEMBL Gene Tree for LRRC28 (if available)
    TreeFam Gene Tree for LRRC28 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for LRRC28 gene
    LRRC8E2  LRCH22  RSU12  LRRC182  LRSAM12  LRRC8A2  ENSG000002719492  PIDD2  
    LRCH32  LRRC8D2  LRRC572  LRRC8B2  LRRC8C2  LRCH42  LRCH12  
    10 SIMAP similar genes for LRRC28 using alignment to 12 protein entries:     LRC28_HUMAN (see all proteins):
    LRRD1    LRRC57    PHLPP2    LRRC1    SCRIB    LRCH1
    LRRC8B    ERBB2IP    FLII    LRCH3

    LRRC28 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for LRRC28
    PGOHUM00000241856


    (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

    10/2544 SNPs in LRRC28 are shown (see all 2544)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1829008851,2
    --99791940(+) CCTGGC/GACCCG 1 -- int10--------
    rs284338551,2
    F--99792044(+) GGCGTG/CTGTTT 1 -- int11Minor allele frequency- C:0.07WA 118
    rs604240901,2
    C,F--99792049(+) GTGTTT/ATGCCT 1 -- int12Minor allele frequency- A:0.50WA 4
    rs1871985531,2
    --99792155(+) GAAATG/TGGAAT 1 -- int10--------
    rs284754271,2
    C--99792173(+) CTACTA/GAATTG 1 -- int10--------
    rs567454381,2
    C,F--99792334(+) CAGCTG/CTATAC 1 -- int12Minor allele frequency- C:0.08WA 120
    rs1916162821,2
    --99792348(+) TGATAC/TTAAGT 1 -- int10--------
    rs1144008411,2
    C--99792375(+) ACTACA/GTAAGA 1 -- int10--------
    rs1401991691,2
    --99792415(+) CTTAAC/GTAGGT 1 -- int10--------
    rs620237681,2
    C,F--99792471(+) GGCTGT/CGTATG 1 -- int16Minor allele frequency- C:0.12NA CSA WA EA 364

    HapMap Linkage Disequilibrium report for LRRC28 (99791567 - 99930934 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for LRRC28:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv268373CNV Insertion20981092
    nsv516288CNV Loss19592680
    nsv904543CNV Gain21882294
    nsv904546CNV Gain21882294

    SABiosciences Cancer Mutation PCR Assays
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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
      --

    (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 LRRC28 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with LRRC28)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2, 3 Clark H.F.... Gray A.M. (2003)
    2. 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. (2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    5. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    6. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
    7. Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)2 Zody M.C....Nusbaum C. (2006)
    8. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    10. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (1996)

    (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: 123355 HGNC: 28355 AceView: LRRC28 Ensembl:ENSG00000168904 euGenes: HUgn123355
    ECgene: LRRC28 H-InvDB: LRRC28

    (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 LRRC28 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 LRRC28 gene:
    Search GeneIP for patents involving LRRC28

    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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     Proteins for LRRC28
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     inGenious Targeting Laboratory - Custom generated mouse model solutions for LRRC28
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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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