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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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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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