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    LOC4330474 carbamoyl-phosphate synthase small chain, chloroplastic-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4330474, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4330474
    Gene description
    carbamoyl-phosphate synthase small chain, chloroplastic-like
    Locus tag
    OSNPB_020708100
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    CARA; 49D11.14
    Expression
    Ubiquitous expression in flower buds (RPKM 112.9), flowers (RPKM 100.5) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (29761637..29766039)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (29270055..29274403)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136355287 Neighboring gene uncharacterized LOC4330473 Neighboring gene universal stress protein A-like protein Neighboring gene inorganic pyrophosphatase TTM1 Neighboring gene uncharacterized LOC4330476

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in 'de novo' pyrimidine nucleobase biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in arginine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in glutamine metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of carbamoyl-phosphate synthase complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    carbamoyl phosphate synthase small chain, chloroplastic
    Names
    Carbamoyl-phosphate synthetase glutamine chain
    LOC_Os02g47850
    OSJNBb0060O16.25
    OSJNBb0060O16.25-1
    OSJNBb0060O16.25-2
    OSJNBb0060O16.25-3
    carbamoyl-phosphate synthase small chain, chloroplastic
    carbamoyl-phosphate synthetase small subunit-like
    putative carbamoyl-phosphate synthetase small subunit
    NP_001388869.1
    NP_001388870.1
    XP_015625686.1
    XP_015625688.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001401940.1 → NP_001388869.1  carbamoyl phosphate synthase small chain, chloroplastic isoform 1

      Status: VALIDATED

      Source sequence(s)
      AK102055, CB654566, CI023527, CI070920, CI392014
      UniProtKB/TrEMBL
      A0A0P0VNK1, A2X8S4

    2. NM_001401941.1 → NP_001388870.1  carbamoyl phosphate synthase small chain, chloroplastic isoform 2

      Status: VALIDATED

      Source sequence(s)
      AK102055, CB654566, CI070920, CI392014
      UniProtKB/Swiss-Prot
      Q6YV23, Q6YV24, Q8S3R8
      UniProtKB/TrEMBL
      A2X8S4

    RNA

    1. NR_174986.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK102055, CI392014

    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      29761637..29766039
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015770200.3 → XP_015625686.1  carbamoyl phosphate synthase small chain, chloroplastic isoform X1

      UniProtKB/TrEMBL
      A2X8S4
      Conserved Domains (3) summary
      cd01744
      Location:265 → 468
      GATase1_CPSase; Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II
      PLN02771
      Location:39 → 464
      PLN02771; carbamoyl-phosphate synthase (glutamine-hydrolyzing)
      pfam00988
      Location:80 → 207
      CPSase_sm_chain; Carbamoyl-phosphate synthase small chain, CPSase domain

    2. XM_015770202.3 → XP_015625688.1  carbamoyl phosphate synthase small chain, chloroplastic isoform X2

      UniProtKB/TrEMBL
      A2X8S4
      Conserved Domains (3) summary
      cd01744
      Location:265 → 441
      GATase1_CPSase; Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II
      PLN02771
      Location:39 → 437
      PLN02771; carbamoyl-phosphate synthase (glutamine-hydrolyzing)
      pfam00988
      Location:80 → 207
      CPSase_sm_chain; Carbamoyl-phosphate synthase small chain, CPSase domain

    RNA

    1. XR_003240510.2 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6YV23.2 GenPept UniProtKB/Swiss-Prot:Q6YV23

    Gene LinkOut

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    Research Materials