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    R3hdm1 R3H domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 226412, updated on 9-Dec-2024

    Summary

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    Official Symbol
    R3hdm1provided by MGI
    Official Full Name
    R3H domain containing 1provided by MGI
    Primary source
    MGI:MGI:2448514
    See related
    Ensembl:ENSMUSG00000056211 AllianceGenome:MGI:2448514
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    R3hdm
    Summary
    Is expressed in several structures, including adipose tissue; alimentary system; brain; eye; and genitourinary system. Orthologous to human R3HDM1 (R3H domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in cortex adult (RPKM 66.1), frontal lobe adult (RPKM 51.5) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See R3hdm1 in Genome Data Viewer
    Location:
    1 E3; 1 55.8 cM
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (128031016..128165475)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (128103282..128237738)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene zinc finger, RAN-binding domain containing 3 Neighboring gene STARR-positive B cell enhancer mm9_chr1:129912788-129913088 Neighboring gene My020 protein Neighboring gene STARR-seq mESC enhancer starr_02156 Neighboring gene ribosomal protein L28, pseudogene 1 Neighboring gene STARR-positive B cell enhancer mm9_chr1:129973654-129973955 Neighboring gene STARR-positive B cell enhancer ABC_E991 Neighboring gene STARR-positive B cell enhancer mm9_chr1:129999606-129999907 Neighboring gene male-enhanced antigen 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_02158 Neighboring gene STARR-seq mESC enhancer starr_02159 Neighboring gene microRNA 128-1 Neighboring gene STARR-positive B cell enhancer ABC_E9060 Neighboring gene predicted gene, 41949 Neighboring gene UBX domain protein 4 Neighboring gene lactase

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. The RNA-binding protein ARPP21 controls dendritic branching by functionally opposing the miRNA it hosts. Rehfeld F, et al. Nat Commun, 2018 Mar 26. PMID 29581509, Free PMC Article
    2. MicroRNA profile of the developing mouse retina. Hackler L Jr, et al. Invest Ophthalmol Vis Sci, 2010 Apr. PMID 19933188, Free PMC Article
    3. A postnatal switch of CELF and MBNL proteins reprograms alternative splicing in the developing heart. Kalsotra A, et al. Proc Natl Acad Sci U S A, 2008 Dec 23. PMID 19075228, Free PMC Article
    4. Overlapping Activities of Two Neuronal Splicing Factors Switch the GABA Effect from Excitatory to Inhibitory by Regulating REST. Nakano Y, et al. Cell Rep, 2019 Apr 16. PMID 30995482, Free PMC Article
    5. Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Feb 28. PMID 12693553

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001357482.1 → NP_001344411.1  R3H domain-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      AC161809
      Consensus CDS
      CCDS15250.1
      UniProtKB/TrEMBL
      E9Q9Q2
      Conserved Domains (3) 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:251 → 302
      SUZ; SUZ domain
      cl25764
      Location:682 → 917
      PAT1; Topoisomerase II-associated protein PAT1

    2. NM_181750.2 → NP_861415.2  R3H domain-containing protein 1

      See identical proteins and their annotated locations for NP_861415.2

      Status: VALIDATED

      Source sequence(s)
      BC032160, BC049181, BY017957
      Consensus CDS
      CCDS15250.1
      UniProtKB/TrEMBL
      E9Q9Q2
      Related
      ENSMUSP00000043103.5, ENSMUST00000036288.11
      Conserved Domains (3) 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:251 → 302
      SUZ; SUZ domain
      cl25764
      Location:682 → 917
      PAT1; Topoisomerase II-associated protein PAT1

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      128031016..128165475
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030253185.2 → XP_030109045.1  R3H domain-containing protein 1 isoform X17

      Conserved Domains (1) summary
      pfam12752
      Location:38 → 89
      SUZ; SUZ domain

    2. XM_036163899.1 → XP_036019792.1  R3H domain-containing protein 1 isoform X17

      Conserved Domains (1) summary
      pfam12752
      Location:38 → 89
      SUZ; SUZ domain

    3. XM_006529417.4 → XP_006529480.1  R3H domain-containing protein 1 isoform X1

      Conserved Domains (3) summary
      cd02642
      Location:153 → 214
      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 ...
      pfam03157
      Location:475 → 885
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:237 → 288
      SUZ; SUZ domain

    4. XM_030253186.2 → XP_030109046.1  R3H domain-containing protein 1 isoform X17

      Conserved Domains (1) summary
      pfam12752
      Location:38 → 89
      SUZ; SUZ domain

    5. XM_006529420.4 → XP_006529483.1  R3H domain-containing protein 1 isoform X4

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 355
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam03157
      Location:445 → 855
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    6. XM_030253188.2 → XP_030109048.1  R3H domain-containing protein 1 isoform X18

      Conserved Domains (2) summary
      pfam09770
      Location:253 → 524
      PAT1; Topoisomerase II-associated protein PAT1
      pfam12752
      Location:38 → 89
      SUZ; SUZ domain

    7. XM_017319914.3 → XP_017175403.1  R3H domain-containing protein 1 isoform X19

      Conserved Domains (2) summary
      pfam09770
      Location:400 → 654
      PAT1; Topoisomerase II-associated protein PAT1
      pfam12752
      Location:38 → 89
      SUZ; SUZ domain

    8. XM_006529419.4 → XP_006529482.1  R3H domain-containing protein 1 isoform X3

      See identical proteins and their annotated locations for XP_006529482.1

      UniProtKB/TrEMBL
      B9EHE8
      Conserved Domains (3) 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 ...
      pfam09606
      Location:673 → 959
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:251 → 302
      SUZ; SUZ domain

    9. XM_006529421.4 → XP_006529484.1  R3H domain-containing protein 1 isoform X8

      Conserved Domains (3) 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 ...
      pfam03157
      Location:401 → 814
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:251 → 302
      SUZ; SUZ domain

    10. XM_006529423.5 → XP_006529486.1  R3H domain-containing protein 1 isoform X11

      Conserved Domains (3) 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 ...
      pfam09606
      Location:588 → 874
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:251 → 302
      SUZ; SUZ domain

    11. XM_006529418.4 → XP_006529481.1  R3H domain-containing protein 1 isoform X2

      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:251 → 302
      SUZ; SUZ domain

    12. XM_030253147.2 → XP_030109007.1  R3H domain-containing protein 1 isoform X5

      Conserved Domains (3) 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 ...
      pfam09606
      Location:657 → 943
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:251 → 302
      SUZ; SUZ domain

    13. XM_006529422.4 → XP_006529485.1  R3H domain-containing protein 1 isoform X10

      Conserved Domains (3) 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 ...
      pfam03157
      Location:388 → 798
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:251 → 302
      SUZ; SUZ domain

    14. XM_036163855.1 → XP_036019748.1  R3H domain-containing protein 1 isoform X13

      Conserved Domains (3) 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 ...
      pfam09606
      Location:512 → 858
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:251 → 302
      SUZ; SUZ domain

    15. XM_030253152.2 → XP_030109012.1  R3H domain-containing protein 1 isoform X7

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 355
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam09606
      Location:629 → 915
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    16. XM_006529424.5 → XP_006529487.1  R3H domain-containing protein 1 isoform X12

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 355
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam03157
      Location:357 → 770
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    17. XM_036163872.1 → XP_036019765.1  R3H domain-containing protein 1 isoform X15

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 355
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam09606
      Location:484 → 830
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    18. XM_030253150.2 → XP_030109010.1  R3H domain-containing protein 1 isoform X6

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 345
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam03157
      Location:429 → 839
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    19. XM_030253156.2 → XP_030109016.1  R3H domain-containing protein 1 isoform X9

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 345
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam09606
      Location:613 → 899
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    20. XM_030253164.2 → XP_030109024.1  R3H domain-containing protein 1 isoform X14

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 345
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam03157
      Location:344 → 754
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    21. XM_030253181.2 → XP_030109041.1  R3H domain-containing protein 1 isoform X16

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 345
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam09606
      Location:528 → 814
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    22. XM_036163897.1 → XP_036019790.1  R3H domain-containing protein 1 isoform X17

      Conserved Domains (1) summary
      pfam12752
      Location:38 → 89
      SUZ; SUZ domain

    23. XM_030253144.2 → XP_030109004.1  R3H domain-containing protein 1 isoform X4

      Conserved Domains (4) 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 ...
      PTZ00440
      Location:8 → 355
      PTZ00440; reticulocyte binding protein 2-like protein; Provisional
      pfam03157
      Location:445 → 855
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam12752
      Location:207 → 258
      SUZ; SUZ domain

    24. XM_017319906.3 → XP_017175395.1  R3H domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      B9EHE8
      Conserved Domains (3) 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 ...
      pfam09606
      Location:673 → 959
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam12752
      Location:251 → 302
      SUZ; SUZ domain

    25. XM_036163828.1 → XP_036019721.1  R3H domain-containing protein 1 isoform X2

      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:251 → 302
      SUZ; SUZ domain

    RNA

    1. XR_001784078.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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