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LOC4335954 PHD finger protein ALFIN-LIKE 4-like [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4335954, updated on 10-Oct-2024

Summary

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Gene symbol
LOC4335954
Gene description
PHD finger protein ALFIN-LIKE 4-like
Locus tag
OSNPB_040444900
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
OsJ_14937
Expression
Ubiquitous expression in leaves after flowering (RPKM 11.7), flower buds (RPKM 11.5) and 6 other tissues See more
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Genomic context

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See LOC4335954 in Genome Data Viewer
Location:
chromosome: 4
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (22678096..22680912)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (22189007..22191742)

Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene probable methyltransferase At1g29790 Neighboring gene ferric reduction oxidase 7, chloroplastic Neighboring gene potassium channel KOR2-like Neighboring gene 23.2 kDa heat shock protein-like

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. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, Free PMC Article
  2. 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
  3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables histone binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables transcription cis-regulatory region binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables transcription coregulator activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
pHD finger protein ALFIN-LIKE 4
Names
LOC_Os04g36730
OSJNBa0027P08.7
PHD finger protein ALFIN-LIKE 4

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_001419358.1 → NP_001406287.1  pHD finger protein ALFIN-LIKE 4

    Status: VALIDATED

    Source sequence(s)
    CB649988, CI078234
    UniProtKB/Swiss-Prot
    A0A0P0WAL5, Q7XUW3

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_089038.1 Reference ASM3414082v1 Primary Assembly

    Range
    22678096..22680912
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7XUW3.2 GenPept UniProtKB/Swiss-Prot:Q7XUW3

Gene LinkOut

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Molecular Biology Databases
Research Materials