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

Gene ID: 4330474, updated on 18-Sep-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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See LOC4330474 in Genome Data Viewer
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 L-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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Molecular Biology Databases
Research Materials