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    R3hdm1 R3H domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304763, updated on 30-Mar-2024

    Summary

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    Official Symbol
    R3hdm1provided by RGD
    Official Full Name
    R3H domain containing 1provided by RGD
    Primary source
    RGD:1307497
    See related
    Ensembl:ENSRNOG00000004099 AllianceGenome:RGD:1307497
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    R3hdm
    Summary
    Predicted to enable nucleic acid binding activity. Orthologous to human R3HDM1 (R3H domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 87.4), Spleen (RPKM 75.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See R3hdm1 in Genome Data Viewer
    Location:
    13q13
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (42148281..42286311)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (39595848..39733876)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (44812567..44950762)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene zinc finger RANBP2-type containing 3 Neighboring gene microRNA 3473 Neighboring gene C-x(9)-C motif containing 1 like 1 Neighboring gene male-enhanced antigen 1-like Neighboring gene U2 spliceosomal RNA Neighboring gene microRNA 128-1 Neighboring gene 60S ribosomal protein L37 pseudogene Neighboring gene transfer RNA proline (anticodon AGG) 78 Neighboring gene UBX domain protein 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    2. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    R3H domain-containing protein 1
    Names
    R3H domain (binds single-stranded nucleic acids) containing
    R3H domain 1 (binds single-stranded nucleic acids)

    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_001134867.1 → NP_001128339.1  R3H domain-containing protein 1

      See identical proteins and their annotated locations for NP_001128339.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A6IBW7, F1LNT3
      Related
      ENSRNOP00000005372.5, ENSRNOT00000005372.6
      Conserved Domains (2) summary
      cd02642
      Location:167 → 228
      R3H_encore_like; R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H ...
      pfam12752
      Location:249 → 302
      SUZ; SUZ domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086031.1 Reference GRCr8

      Range
      42148281..42286311
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008769460.4 → XP_008767682.1  R3H domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I6GEX2, A6IBW7
      Related
      ENSRNOP00000086415.1
      Conserved Domains (2) summary
      cd02642
      Location:167 → 228
      R3H_encore_like; R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H ...
      pfam12752
      Location:249 → 302
      SUZ; SUZ domain

    2. XM_008769461.4 → XP_008767683.1  R3H domain-containing protein 1 isoform X8

      UniProtKB/TrEMBL
      A6IBW7
      Conserved Domains (2) summary
      cd02642
      Location:167 → 228
      R3H_encore_like; R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H ...
      pfam12752
      Location:249 → 302
      SUZ; SUZ domain

    3. XM_008769459.3 → XP_008767681.1  R3H domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A6IBW7
      Conserved Domains (2) summary
      cd02642
      Location:167 → 228
      R3H_encore_like; R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H ...
      pfam12752
      Location:249 → 302
      SUZ; SUZ domain

    4. XM_063272279.1 → XP_063128349.1  R3H domain-containing protein 1 isoform X5

    5. XM_006249694.5 → XP_006249756.1  R3H domain-containing protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A8I5ZLR3, A6IBW7
      Related
      ENSRNOP00000078882.1
      Conserved Domains (2) summary
      cd02642
      Location:123 → 184
      R3H_encore_like; R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H ...
      pfam12752
      Location:205 → 258
      SUZ; SUZ domain

    6. XM_063272281.1 → XP_063128351.1  R3H domain-containing protein 1 isoform X7

    7. XM_008769463.3 → XP_008767685.1  R3H domain-containing protein 1 isoform X11

      Conserved Domains (3) summary
      cd02642
      Location:123 → 184
      R3H_encore_like; R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H ...
      pfam07223
      Location:475 → 719
      DUF1421; Protein of unknown function (DUF1421)
      pfam12752
      Location:205 → 258
      SUZ; SUZ domain

    8. XM_063272280.1 → XP_063128350.1  R3H domain-containing protein 1 isoform X6

    9. XM_063272282.1 → XP_063128352.1  R3H domain-containing protein 1 isoform X9

    10. XM_006249690.5 → XP_006249752.1  R3H domain-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006249752.1

      UniProtKB/TrEMBL
      A6IBW7, F1LNT3
      Conserved Domains (2) summary
      cd02642
      Location:167 → 228
      R3H_encore_like; R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H ...
      pfam12752
      Location:249 → 302
      SUZ; SUZ domain

    11. XM_063272284.1 → XP_063128354.1  R3H domain-containing protein 1 isoform X10

    12. XM_017598788.2 → XP_017454277.1  R3H domain-containing protein 1 isoform X12

    13. XM_006249698.2 → XP_006249760.1  R3H domain-containing protein 1 isoform X13

      Conserved Domains (1) summary
      pfam12752
      Location:36 → 89
      SUZ; SUZ domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001012024.1: Suppressed sequence

      Description
      NM_001012024.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.
    Nucleotide Protein Strain
    Heading Accession and Version

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