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GABARAP Gene

protein-coding   GIFtS: 63

GC17M007084
GABA(A) receptor-associated protein
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
FLC3B 3
FLJ25768 2
MGC120154 2
MGC120155 2
MM46 1, 2, 3
Descriptions
GABA(A) receptor-associated protein 2, 3
External Ids
HGNC: 40671
Entrez Gene: 113372
UniProtKB: O951663
Ensembl: ENSG000001702967
Search outside databases for aliases for GABARAP gene

Previous GC identifers: GC16M055704 GC17M007873 GC17M007086 GC17M007344

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for GABARAP:
Gamma-aminobutyric acid A receptors [GABA(A) receptors] are ligand-gated chloride channels that
mediate inhibitory neurotransmission. This gene encodes GABA(A) receptor-associated protein, which
is highly positively charged in its N-terminus and shares sequence similarity with light chain-3
of microtubule-associated proteins 1A and 1B. This protein clusters neurotransmitter receptors by
mediating interaction with the cytoskeleton. [provided by RefSeq]

UniProtKB/Swiss-Prot: GBRAP_HUMAN, O95166
Function: May play a role in intracellular transport of GABA(A) receptors and its interaction with
the cytoskeleton (By similarity)

Gene Wiki entry for GABARAP

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the GABARAP gene  

Entrez Gene cytogenetic band: 17p13.1   Ensembl cytogenetic band:  17p13.1   HGNC chromosome: 17

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

GeneLoc gene densities for chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M007084:     (about GC identifiers)

Start:
7,084,462 bp from pter
End:
7,086,477 bp from pter
Size:
2,016 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000017.9  NT_010718.15  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: GBRAP_HUMAN, O95166 (See protein sequence)
Recommended Name: Gamma-aminobutyric acid receptor-associated protein  
Size: 117 amino acids; 13918 Da
Subunit: Interacts with GPHN and NSF (By similarity). Interacts with GABRG2, beta-tubulin and ULK1
Subcellular location: Endomembrane system (By similarity). Cytoplasm, cytoskeleton (By similarity).
Golgi apparatus membrane (By similarity). Note=Largely associated with intracellular membrane
structures including the Golgi apparatus and post-synaptic cisternae. Colocalizes with
microtubules (By similarity)
PDB structures from and Proteopedia :
1GNU (3D)    1KLV (3D)    1KM7 (3D)    1KOT (3D)    3D32 (3D)    3DOW (3D)    

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_009209.1  

    ENSEMBL proteins: 
    ENSP00000306866 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (GABARAP)
    Human Recombinant Proteins from Abnova (GABARAP)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    5/10 Gene Ontology (GO) cellular component terms (links to tree view) (see all 10 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000139 Golgi membrane IEA--
    GO:0000421 autophagic vacuole membrane IDA15169837
    GO:0005737 cytoplasm IEA--
    GO:0005764 lysosome IEA--
    GO:0005790 smooth endoplasmic reticulum IEA--
    About this table

    Antibodies for GABARAP: 
    Browse Antibodies Central at Invitrogen
    Millipore Mono- and Polyclonal Antibodies for the study of GABARAP
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (GABARAP), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (GABARAP)
    Novus Biologicals Antibodies for GABARAP

    Assays for GABARAP: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    1 InterPro domain/family:
     IPR004241 MAP1_LC3


       GeneDecks  GABARAP for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry O95166

    ProtoNet protein and cluster: O95166

    1 Blocks protein family: IPB004241 Light chain 3 (LC3)

    UniProtKB/Swiss-Prot: GBRAP_HUMAN, O95166
    Similarity: Belongs to the MAP1 LC3 family

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (GABARAP)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (GABARAP)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_007278

                  Applied Biosystems Silencer® siRNAs for GABARAP

                  Sigma-Aldrich siRNA and siRNA Panels for GABARAP  
                         Sigma-Aldrich shRNA Panels and shRNA for GABARAP  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Browse Clone Ranger at Invitrogen for clones
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_007278
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_007278
                                     untagged cDNA clone in CMV expression vector: NM_007278 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_007278

    UniProtKB/Swiss-Prot: GBRAP_HUMAN, O95166
    Function: May play a role in intracellular transport of GABA(A) receptors and its interaction with
    the cytoskeleton (By similarity)

    Genatlas biochemistry entry for GABARAP:
    GABA (A) receptor-associated protein binding GABA-A receptors,gamma 2 subunit and linking the
    receptors to the cytoskeleton,highly homolog to microtubule associated proteins 1A and 1B
    ganglioside expression factor homolog 2

    1 MGI mutant phenotype (inferred from 2 alleles(MGI details for Gabarap):

    normal

    4 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515 protein binding IPI11096062 11146101
    GO:0008017 microtubule binding IEA--
    GO:0048487 beta-tubulin binding IDA9892355
    GO:0050811 GABA receptor binding IPI9892355
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    1 Sigma-Aldrich "Your Favorite Gene" Pathway for  GABARAP  (Your Favorite Gene powered by Ingenuity) 
     GABA Receptor Signaling

       GeneDecks  GABARAP for the pathways selected above  
    About GeneDecksing

    1 Kegg Pathway  (Kegg details for GABARAP):
     hsa04140 Regulation of autophagy

       GeneDecks  GABARAP for the pathways selected above  
    About GeneDecksing
     Gene Network CentralTM Interacting Genes and Proteins Network for  GABARAP 


    5/35 Interacting proteins for GABARAP (O951661, 2 ENSP000003068663) via UniProtKB, MINT, and/or STRING (see all 35 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATG4BQ9Y4P12, ENSP000003365473MINT-63271 STRING (score=.961)
    ULK1O753851, ENSP000003245603EBI-712001, EBI-908831 STRING (score=.932)
    AESQ081172MINT-64063
    HDAC5Q9UQL62MINT-65795
    PKP4Q995692MINT-65281
    About this table

    4 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000226 microtubule cytoskeleton organization IEA--
    GO:0006605 protein targeting TAS9892355
    GO:0007268 synaptic transmission TAS9892355
    GO:0015031 protein transport IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for GABARAP

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (GABARAP)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (GABARAP)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_007278

                  Sigma-Aldrich siRNA and siRNA Panels for GABARAP  
                         Sigma-Aldrich shRNA Panels and shRNA for GABARAP  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_007278  

    REFSEQ mRNAs for GABARAP gene: 

    NM_007278.1   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_007278  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_007278
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_007278
                                     untagged cDNA clone in CMV expression vector: NM_007278 

    Additional cDNA sequence: 

    AB030711.1 AF044671.1 AF067171.1 AF161586.1 AF183425.1 AK098634.1 AK312205.1 AL050182.1 
    BC106748.1 BC106749.1 CR457043.1 CR542235.1 CR592433.1 CR597728.1 CR624246.1 

    24/28 DOTS entries (see all 28 ):

    DT.99926443  DT.91773251  DT.100649015  DT.449606  DT.101985433  DT.120968722  DT.120968637  DT.91773230 
    DT.99937435  DT.120968554  DT.120968747  DT.120968788  DT.75111082  DT.100848809  DT.95271157  DT.120968638 
    DT.120968758  DT.95271171  DT.450749  DT.95127999  DT.95271155  DT.100848801  DT.120968719  DT.91773237 

    24/672 AceView cDNA sequences (see all 672 ):

    F15724 BU149629 BU631380 BU856629 AA427910 T31891 BQ962375 CB269137 
    AA719757 BU149493 BM838407 CR607499 BQ643517 BM980136 CF129367 BU677714 
    AI474511 AW152092 AI219019 AA862576 AI929800 AW273245 BM450012 CR592433 

    highest scoring ESTs for GABARAP:

    AF044671 CB067200 H87141 R78846 AA040772 AA135648 AA296984 AA297054 AA297636 AA297957 

    Unigene Cluster for GABARAP:

    GABA(A) receptor-associated protein
    Hs.647421  [show with all ESTs]
    Unigene Representative Sequence: BM803698


    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for GABARAP

    ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b
    SP1:              -                 -               
    SP2:              -                                 
    SP3:              -     -           -               
    SP4:                                -               

    About this scheme

    ECgene alternative splicing isoforms for GABARAP

    1 Ensembl transcript including schematic representation:
    ENST00000302386  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    GABARAP expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for GABARAP

    1 / 2 / 3

    3 probe-sets matching GABARAP gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    37298_at2, 3 U95-A 2 1.00 0.94 1.00 1.00 AF044671 1.00 0.87 0.94 1

    200645_at2, 3 U133-A 3 1.00 0.86 -- -- NM_007278 0.60 0.78 0.69 1

    200645_at2 U133Plus2 3 1.00 0.86 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: AAGAAGACTT

    SOURCE GeneReport for Unigene cluster: Hs.647421

    Expression variation in blood from EXPOLDB for GABARAP

    UniProtKB/Swiss-Prot: GBRAP_HUMAN, O95166
    Tissue specificity: Heart, brain, placenta, liver, skeletal muscle, kidney and pancreas

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for GABARAP gene from 5/16 species (see all 16 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    GABARAP1   -- GABA(A) receptor-associated protein 96.01(n)
    100(a)
    479479  XM_536616.2  XP_536616.2 
    chimpanzee
    (Pan troglodytes)
    GABARAP1   -- GABA(A) receptor-associated protein 99.72(n)
    100(a)
    748888  XM_001169709.1  XP_001169709.1 
    cow
    (Bos taurus)
    GABARAP1   -- GABA(A) receptor-associated protein 95.44(n)
    100(a)
    327715  NM_001034048.1  NP_001029220.1 
    rat
    (Rattus norvegicus)
    Gabarap1   -- GABA(A) receptor-associated protein 95.44(n)
    100(a)
    58974  NM_172036.2  NP_742033.1 
    mouse
    (Mus musculus)
    Gabarap1, 5 11 (42.00 cM)5
    gamma-aminobutyric acid receptor associated protein1, 5 95.16(n)1
    100(a)1
    564861  NM_019749.31  NP_062723.11 
     AF1615875  AK0028795  (see all 13)
    About this table        Species with no ortholog for GABARAP

    ENSEMBL Gene Tree for GABARAP
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for GABARAP gene
    GABARAPL32  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/12 NCBI SNPs in GABARAP are shown (see all 12 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 16)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 17 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs2228431,2
    A,C,F,H7086705(-) TTTAGA/GGTAAT 1 -- ng3114Minor allele frequency- G:0.34EA NA MN EU WA 3502
    rs21345101,2
    C,H7085715(-) GATAGT/CAGAAA 1 A/V mis14Minor allele frequency- C:0.00EU EA WA 404
    rs72160471,2
    A,F,H7086005(+) GCAACC/GTTAGC 1 -- int14Minor allele frequency- G:0.09EU EA WA 418
    --
    rs116563231,2
    C7085841(+) TTGTCC/TTTGTA 1 -- int10--------
    --
    rs557386541,2
    --7087093(+) CTCAAA/GGAGGG 1 -- ng310--------
    --
    rs739767741,2
    --7086538(+) GACTGC/TCCCCC 1 -- ng310--------
    rs3744871,2
    --7086547(+) CCCCGC/ATAAGA 1 -- ng31 tfbs31Minor allele frequency- A:0.00MN 184
    --
    rs620591691,2
    --7085759(+) GGAATA/GCAGCC 1 -- int10--------
    --
    rs81925111,2
    --7085776(-) GACAGA/GTGCAG 1 -- int10--------
    --
    rs585747481,2
    --7086216(+) GTCCC-/AGATCC 1 -- int10--------
    About this table

    HapMap Linkage Disequilibrium images for GABARAP (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 605125

    Human Genome Epidemiology Navigator: GABARAP (1 document)

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

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

    10/72 PubMed articles for GABARAP gene (see all 72 ):
    (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, and/or H-InvDB)
    About This Section

    Entrez Gene: 11337 HGNC: 4067 AceView: CLDN7andGABARAPandDULLARD Ensembl:ENSG00000170296 euGenes: HUgn11337
    ECgene: GABARAP H-InvDB: GABARAP
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for GABARAP:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for GABARAP Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for GABARAP Browse small molecules at Sigma-Aldrich
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     Antibodies for GABARAP

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