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LOC4337972 pre-mRNA splicing factor SR-like 1 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4337972, updated on 12-Jul-2024

Summary

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Gene symbol
LOC4337972
Gene description
pre-mRNA splicing factor SR-like 1
Locus tag
OSNPB_050178900
Gene type
protein coding
RefSeq status
MODEL
Organism
Oryza sativa Japonica Group
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Expression
Ubiquitous expression in leaves after flowering (RPKM 20.9), roots after flowering (RPKM 19.9) and 6 other tissues See more
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Genomic context

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Location:
chromosome: 5
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (4723678..4727630)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (4704603..4708595)

Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' Neighboring gene auxin-responsive protein IAA15-like Neighboring gene E3 ubiquitin-protein ligase At1g63170 Neighboring gene acyl transferase 7-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. 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

Component Evidence Code Pubs
part_of precatalytic spliceosome IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
pre-mRNA splicing factor SR-like 1
Names
Os05g0178900
pre-mRNA-splicing factor 38B

NCBI Reference Sequences (RefSeq)

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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_089039.1 Reference ASM3414082v1 Primary Assembly

    Range
    4723678..4727630
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_026025676.2 → XP_025881461.1  pre-mRNA splicing factor SR-like 1 isoform X3

    Conserved Domains (1) summary
    pfam03371
    Location:12 → 150
    PRP38; PRP38 family

  2. XM_026025675.2 → XP_025881460.1  pre-mRNA splicing factor SR-like 1 isoform X2

    Conserved Domains (1) summary
    pfam03371
    Location:12 → 150
    PRP38; PRP38 family

  3. XM_015785022.3 → XP_015640508.1  pre-mRNA splicing factor SR-like 1 isoform X1

    UniProtKB/TrEMBL
    A0A8J8XW10, B7F7E9, B8AYN3, B9FMS7
    Conserved Domains (2) summary
    pfam03371
    Location:12 → 164
    PRP38; PRP38 family
    pfam12871
    Location:184 → 227
    PRP38_assoc; Pre-mRNA-splicing factor 38-associated hydrophilic C-term

RNA

  1. XR_010741307.1 RNA Sequence

  2. XR_010741306.1 RNA Sequence

  3. XR_010741310.1 RNA Sequence

  4. XR_010741309.1 RNA Sequence

  5. XR_010741308.1 RNA Sequence

  6. XR_003242428.2 RNA Sequence

Nucleotide Protein
Heading Accession and Version

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