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

DALRD3 Gene

protein-coding   GIFtS: 43
GCID: GC03M049073

DALR Anticodon Binding Domain Containing 3

  Search for DALRD3
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
DALR Anticodon Binding Domain Containing 31 2
DALR Anticodon-Binding Domain-Containing Protein 32

External Ids:    HGNC: 255361   Entrez Gene: 551522   Ensembl: ENSG000001781497   UniProtKB: Q5D0E63   

Export aliases for DALRD3 gene to outside databases

Previous GC identifers: GC03M049029 GC03M049055 GC03M049059 GC03M049062 GC03M049063 GC03M049064 GC03M049065 GC03M049066 GC03M049068


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

Entrez Gene summary for DALRD3 Gene:
The exact function of this gene is not known. It encodes a protein with a DALR anticodon binding domain similar to
that of class Ia aminoacyl tRNA synthetases. This gene is located in a cluster of genes (with a complex
sense-anti-sense genome architecture) on chromosome 3, and contains two micro RNA (miRNA) precursors (mir-425 and
mir-191) in one of its introns. Preferential expression of this gene (the miRNAs and other genes in the cluster)
in testis suggests a role of this gene in spermatogenesis (PMID:19906709). (provided by RefSeq, Feb 2013)

GeneCards Summary for DALRD3 Gene: 
DALRD3 (DALR anticodon binding domain containing 3) is a protein-coding gene. GO annotations related to this gene include arginine-tRNA ligase activity and ATP binding.




(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  NT_022517.18  NC_018914.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the DALRD3 gene promoter:
         E2F-4   E2F-3a   POU2F2C   E2F-5   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): DALRD3 promoter sequence
   Search SABiosciences Chromatin IP Primers for DALRD3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat DALRD3


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

Entrez Gene cytogenetic band: 3p21.31   Ensembl cytogenetic band:  3p21.31   HGNC cytogenetic band: 3p21.31

DALRD3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
DALRD3 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M049073:  view genomic region     (about GC identifiers)

Start:
49,052,435 bp from pter      End:
49,059,726 bp from pter
Size:
7,292 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: DALD3_HUMAN, Q5D0E6 (See protein sequence)
Recommended Name: DALR anticodon-binding domain-containing protein 3  
Size: 543 amino acids; 59363 Da
Secondary accessions: Q7Z5S7 Q86WY1 Q8N105 Q8NA89 Q9NVU8
Alternative splicing: 4 isoforms:  Q5D0E6-1   Q5D0E6-2   Q5D0E6-3   Q5D0E6-4   

Explore the universe of human proteins at neXtProt for DALRD3: NX_Q5D0E6

Explore proteomics data for DALRD3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q5D0E6

  • DALRD3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    DALRD3 Protein Expression
    REFSEQ proteins (3 alternative transcripts): 
    NP_001009996.1  NP_001263334.1  NP_060584.3  

    ENSEMBL proteins: 
     ENSP00000396650   ENSP00000410623   ENSP00000344989   ENSP00000403770   ENSP00000323265  
     ENSP00000397385   ENSP00000378846  

    Human Recombinant Protein Products for DALRD3: 
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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    2 InterPro protein domains:
     IPR008909 DALR_anticod-bd
     IPR009080 tRNAsynth_1a_anticodon-bd

    Graphical View of Domain Structure for InterPro Entry Q5D0E6

    ProtoNet protein and cluster: Q5D0E6


    DALRD3 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): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding ----
    GO:0004812aminoacyl-tRNA ligase activity ----
    GO:0004814arginine-tRNA ligase activity IEA--
    GO:0005524ATP binding IEA--
         
    DALRD3 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 DALRD3

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

    5/9 Interacting proteins for DALRD3 (Q5D0E62, 3 ENSP000003449894) via UniProtKB, MINT, STRING, and/or I2D (see all 9)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CSNK2BP678702, 3MINT-8253220 I2D: score=2 
    ENSG00000206406P678702, 3MINT-8253220 I2D: score=2 
    ENSG00000224398P678702, 3MINT-8253220 I2D: score=2 
    ENSG00000224774P678702, 3MINT-8253220 I2D: score=2 
    ENSG00000228875P678702, 3MINT-8253220 I2D: score=2 
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006418tRNA aminoacylation for protein translation ----
    GO:0006420arginyl-tRNA aminoacylation IEA--

    DALRD3 for ontologies           About GeneDecksing



    (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 DALRD3 (DALD3)

    Search CenterWatch for drugs/clinical trials and news about DALRD3 / DALD3

    (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 DALRD3 gene (3 alternative transcripts): 
    NM_001009996.2  NM_001276405.1  NM_018114.5  

    Unigene Cluster for DALRD3:

    DALR anticodon binding domain containing 3
    Hs.708076  [show with all ESTs]
    Unigene Representative Sequence: AK308273
    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000481001 ENST00000438585 ENST00000441576 ENST00000460505 ENST00000341949
    ENST00000498498 ENST00000498794(uc003cvk.1 uc003cvl.1 uc011bca.1)
    ENST00000440857(uc010hko.1) ENST00000313778(uc003cvm.1) ENST00000472331
    ENST00000467457 ENST00000484831 ENST00000420952 ENST00000496568 ENST00000492585
    ENST00000395462
    miRNA
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    Inhib. RNA
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    Additional mRNA sequence: 

    AK001358.1 AK093204.1 AK093294.1 AK301352.1 AK308273.1 BC014099.2 BC032440.1 BC047683.1 
    BC054493.1 BX648719.1 

    24/32 DOTS entries (see all 32):

    DT.40107524  DT.120852614  DT.100871177  DT.95152922  DT.95314332  DT.100654641  DT.97861939  DT.95259800 
    DT.86859941  DT.100654644  DT.92437664  DT.100654638  DT.95289841  DT.100654643  DT.40133097  DT.91932300 
    DT.100644682  DT.95259823  DT.100683581  DT.120852415  DT.86836253  DT.86859942  DT.100646769  DT.100654639 

    24/304 AceView cDNA sequences (see all 304):

    CA388881 CA388880 BM476341 CA393762 AW135936 AI553735 CD723909 AA747665 
    CB994066 AI384074 CA306339 BQ427440 AW204768 BC047683 BC054493 AI624207 
    BC014099 BI912394 BF340990 BG338061 BM549505 BE393899 AI951656 BE408798 

    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for DALRD3 (see all 7)    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c ^ 3a · 3b ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b · 11c ^ 12a · 12b ^ 13
    SP1:                                                                                                                                                
    SP2:                                                                                                        -                                       
    SP3:                                                                                                        -     -                                 
    SP4:                                                                                -                                                               
    SP5:                                                                                                                                                


    ECgene alternative splicing isoforms for DALRD3

    (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

    DALRD3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    DALRD3 Expression
    About this image


    See DALRD3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for DALRD3

    SOURCE GeneReport for Unigene cluster: Hs.708076
        SABiosciences Custom PCR Arrays for DALRD3
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    In Situ
    Assay Products:
     

     
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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)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for DALRD3 gene from 6/11 species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Dalrd31 , 5 DALR anticodon binding domain containing 31, 5 79.8(n)1
    78.25(a)1
      9 (59.51 cM)5
    677891  NM_026378.31  NP_080654.31 
     1085698925 
    chicken
    (Gallus gallus)
    Aves DALRD36
    DALR anticodon binding domain containing 3
    54(a)
    1 ↔ 1
    12(11632154-11635942)
    lizard
    (Anolis carolinensis)
    Reptilia DALRD36
    Uncharacterized protein
    45(a)
    1 ↔ 1
    2(187847586-187858760)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia BX754897.12   -- 73.29(n)    BX754897.1 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1539581 zgc:153958 53.29(n)
    45.16(a)
      571036  NM_001123326.1  NP_001116798.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG80976
    --
    22(a)
    1 ↔ 1
    X(15477194-15479058)


    ENSEMBL Gene Tree for DALRD3 (if available)
    TreeFam Gene Tree for DALRD3 (if available)

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

    (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

    10/151 SNPs in DALRD3 are shown (see all 151)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1817252031,2
    --48987818(+) CGCAGC/TTGGCT 5 Q syn1 ut510--------
    rs39234751,2
    C,F--48988097(+) GGCACC/G/TGGGCC 3 -- int13NA CSA 123
    rs2020090331,2
    C--48988298(-) GCGACC/TAGGCG 5 T syn1 int10--------
    rs2000753981,2
    --48988334(+) ACCGG-/AAAAAA 3 -- ut51 int10--------
    rs788075221,2
    C,F--48988459(+) TACCGC/ACCCCA 3 -- us2k1 int12Minor allele frequency- A:0.06NA 122
    rs1867949381,2
    --48988523(+) GGGGCC/TCTCCC 3 -- us2k1 int10--------
    rs39234761,2
    C,H--48988528(+) CCTCCC/GTGGGC 3 -- us2k1 int14Minor allele frequency- G:0.00NS EA 418
    rs1479919941,2
    C--48988591(+) ACCCGA/GTGGGC 3 -- us2k1 int10--------
    rs1912348501,2
    --48988617(+) CGTCTC/GTTCTC 3 -- us2k1 int10--------
    rs2019931931,2
    C--48988636(+) TCTCA-/ATTGTTT 3 -- us2k1 int10--------

    HapMap Linkage Disequilibrium report for DALRD3 (49052435 - 49059726 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for DALRD3:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv876764CNV Loss21882294

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing DALRD3
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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 DALRD3 gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with DALRD3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    2. 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. (2002)
    3. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (2012)
    4. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    5. 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)
    6. Global identification of modular cullin-RING ligase su bstrates. (PubMed id 21963094)1 Emanuele M.J....Elledge S.J. (2011)
    7. A directed protein interaction network for investigat ing intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (2011)
    8. Integrative analysis of the human cis-antisense gene pairs, miRNAs and their transcription regulation patterns. (PubMed id 19906709)1 Grinchuk O.V....Kuznetsov V.A. (2010)
    9. The DNA sequence, annotation and analysis of human chromosome 3. (PubMed id 16641997)2 Muzny D.M....Gibbs R.A. (2006)
    10. 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)

    (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)
    About This Section
    Entrez Gene: 55152 HGNC: 25536 AceView: FLJ10496 Ensembl:ENSG00000178149 euGenes: HUgn55152
    ECgene: DALRD3 H-InvDB: DALRD3

    (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 DALRD3 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 DALRD3 gene:
    Search GeneIP for patents involving DALRD3

    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
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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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