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    Rufy3 RUN and FYVE domain containing 3 [ Mus musculus (house mouse) ]

    Gene ID: 52822, updated on 23-Jun-2021

    Summary

    Official Symbol
    Rufy3provided by MGI
    Official Full Name
    RUN and FYVE domain containing 3provided by MGI
    Primary source
    MGI:MGI:106484
    See related
    Ensembl:ENSMUSG00000029291
    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
    R; Ripx; Rpipx; AW455998; AW538594; D5Bwg0860e; 2810428M05Rik; 6330416M07Rik
    Expression
    Broad expression in CNS E18 (RPKM 20.6), whole brain E14.5 (RPKM 18.1) and 18 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Rufy3 in Genome Data Viewer
    Location:
    5 E1; 5 43.77 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (88711305..88799276)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (88564505..88651417)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (89012599..89071721)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene immunoglobulin joining chain Neighboring gene predicted gene, 42107 Neighboring gene UTP3 small subunit processome component Neighboring gene G-rich RNA sequence binding factor 1 Neighboring gene MOB kinase activator 1B Neighboring gene predicted gene 15682

    Genomic regions, transcripts, and products

    Expression

    • 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

    Variation

    Alleles

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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • KIAA0871

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in axon IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell junction IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in dendrite IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in dendrite IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in dendrite ISO
    Inferred from Sequence Orthology
    more info
     
    located_in filopodium ISO
    Inferred from Sequence Orthology
    more info
     
    located_in growth cone IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in growth cone ISO
    Inferred from Sequence Orthology
    more info
     
    located_in lamellipodium ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in neuronal cell body IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in neuronal cell body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in perikaryon IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in perikaryon ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    protein RUFY3
    Names
    rap2 interacting protein x
    singar
    singar1
    single axon-regulated protein 1

    NCBI Reference Sequences (RefSeq)

    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_001289774.1NP_001276703.1  protein RUFY3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC121541, AK160820, BP765560
      Consensus CDS
      CCDS80324.1
      UniProtKB/TrEMBL
      A0A0G2JFT8
      Related
      ENSMUSP00000143302.2, ENSMUST00000198965.5
      Conserved Domains (5) summary
      cd15744
      Location:611657
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam01442
      Location:324497
      Apolipoprotein; Apolipoprotein A1/A4/E domain
      pfam02759
      Location:153276
      RUN; RUN domain
      pfam10212
      Location:323372
      TTKRSYEDQ; Predicted coiled-coil domain-containing protein
      cl23720
      Location:390499
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)
    2. NM_001289775.1NP_001276704.1  protein RUFY3 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several exons in the 3' coding region and contains an alternate 3' terminal exon, compared to variant 1. It encodes isoform 2, which is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK160820, BM898740
      Consensus CDS
      CCDS80323.1
      UniProtKB/Swiss-Prot
      Q9D394
      Related
      ENSMUSP00000143770.2, ENSMUST00000196894.5
      Conserved Domains (4) summary
      pfam01442
      Location:324496
      Apolipoprotein; Apolipoprotein A1/A4/E domain
      pfam02759
      Location:153276
      RUN; RUN domain
      pfam10212
      Location:323372
      TTKRSYEDQ; Predicted coiled-coil domain-containing protein
      cl23720
      Location:390518
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)
    3. NM_001289776.1NP_001276705.1  protein RUFY3 isoform 3

      See identical proteins and their annotated locations for NP_001276705.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region, initiates translation at an alternate start codon and contains an alternate 3' terminal exon, compared to variant 1. Variants 3 and 4 encode the same isoform (3), which is shorter and has distinct N- and C-termini, compared to isoform 1.
      Source sequence(s)
      AK013185, BC049127, BC058259, BM898740
      Consensus CDS
      CCDS80325.1
      UniProtKB/Swiss-Prot
      Q9D394
      Related
      ENSMUSP00000143209.2, ENSMUST00000196686.2
      Conserved Domains (2) summary
      pfam02759
      Location:121244
      RUN; RUN domain
      pfam10212
      Location:291340
      TTKRSYEDQ; Predicted coiled-coil domain-containing protein
    4. NM_001289777.1NP_001276706.1  protein RUFY3 isoform 3

      See identical proteins and their annotated locations for NP_001276706.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and 5' coding region, initiates translation at an alternate start codon and contains an alternate 3' terminal exon, compared to variant 1. Variants 3 and 4 encode the same isoform (3), which is shorter and has distinct N- and C-termini, compared to isoform 1.
      Source sequence(s)
      AK013185, AK148795, AK160820, BM898740, DV068924
      Consensus CDS
      CCDS80325.1
      UniProtKB/Swiss-Prot
      Q9D394
      Related
      ENSMUSP00000143115.2, ENSMUST00000199312.5
      Conserved Domains (2) summary
      pfam02759
      Location:121244
      RUN; RUN domain
      pfam10212
      Location:291340
      TTKRSYEDQ; Predicted coiled-coil domain-containing protein
    5. NM_001359208.1NP_001346137.1  protein RUFY3 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and 5' coding region, initiates translation at an alternate start codon and contains an alternate 3' terminal exon, compared to variant 1. It encodes isoform 4, which is shorter and has distinct N- and C-termini, compared to isoform 1. Variants 5 and 6 both encode the same isoform (4).
      Source sequence(s)
      AC121541
      Consensus CDS
      CCDS19403.1
      Conserved Domains (2) summary
      pfam02759
      Location:103224
      RUN; RUN domain
      cl25732
      Location:258464
      SMC_N; RecF/RecN/SMC N terminal domain
    6. NM_001359209.1NP_001346138.1  protein RUFY3 isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 5' UTR and 5' coding region and initiates translation at an alternate start codon, compared to variant 1. It encodes isoform 5, which is shorter and has a distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AC121541
      Conserved Domains (3) summary
      TIGR02168
      Location:243502
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15744
      Location:561607
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:103224
      RUN; RUN domain
    7. NM_027530.3NP_081806.1  protein RUFY3 isoform 4

      See identical proteins and their annotated locations for NP_081806.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR and 5' coding region, initiates translation at an alternate start codon and contains an alternate 3' terminal exon, compared to variant 1. It encodes isoform 4, which is shorter and has distinct N- and C-termini, compared to isoform 1. Variants 5 and 6 both encode the same isoform (4).
      Source sequence(s)
      AK013185, BC049127, BM898740
      Consensus CDS
      CCDS19403.1
      UniProtKB/Swiss-Prot
      Q9D394
      Related
      ENSMUSP00000031229.7, ENSMUST00000031229.11
      Conserved Domains (2) summary
      pfam02759
      Location:103224
      RUN; RUN domain
      cl25732
      Location:258464
      SMC_N; RecF/RecN/SMC N terminal domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000071.7 Reference GRCm39 C57BL/6J

      Range
      88711305..88799276
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006535115.5XP_006535178.1  protein RUFY3 isoform X5

      See identical proteins and their annotated locations for XP_006535178.1

      Conserved Domains (3) summary
      TIGR02168
      Location:179438
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15744
      Location:497543
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:39160
      RUN; RUN domain
    2. XM_036165294.1XP_036021187.1  protein RUFY3 isoform X7

      Conserved Domains (2) summary
      COG1196
      Location:192400
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02759
      Location:39160
      RUN; RUN domain
    3. XM_006535109.4XP_006535172.1  protein RUFY3 isoform X1

      Conserved Domains (3) summary
      COG1196
      Location:340570
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd15744
      Location:629675
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:171292
      RUN; RUN domain
    4. XM_036165293.1XP_036021186.1  protein RUFY3 isoform X6

      Conserved Domains (2) summary
      COG1196
      Location:326532
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02759
      Location:171292
      RUN; RUN domain
    5. XM_036165295.1XP_036021188.1  protein RUFY3 isoform X7

      Conserved Domains (2) summary
      COG1196
      Location:192400
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02759
      Location:39160
      RUN; RUN domain
    6. XM_006535116.5XP_006535179.1  protein RUFY3 isoform X5

      See identical proteins and their annotated locations for XP_006535179.1

      Conserved Domains (3) summary
      TIGR02168
      Location:179438
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15744
      Location:497543
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:39160
      RUN; RUN domain
    7. XM_006535112.2XP_006535175.1  protein RUFY3 isoform X2

      See identical proteins and their annotated locations for XP_006535175.1

      Conserved Domains (3) summary
      TIGR02168
      Location:261520
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15744
      Location:579625
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:121242
      RUN; RUN domain
    8. XM_006535111.2XP_006535174.1  protein RUFY3 isoform X2

      See identical proteins and their annotated locations for XP_006535174.1

      Conserved Domains (3) summary
      TIGR02168
      Location:261520
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15744
      Location:579625
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:121242
      RUN; RUN domain
    9. XM_017320983.3XP_017176472.1  protein RUFY3 isoform X3

      Conserved Domains (3) summary
      TIGR02168
      Location:243502
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15744
      Location:561607
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:103224
      RUN; RUN domain
    10. XM_006535114.4XP_006535177.1  protein RUFY3 isoform X4

      Conserved Domains (3) summary
      TIGR02168
      Location:213472
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15744
      Location:531577
      FYVE_RUFY3; FYVE-related domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins
      pfam02759
      Location:73194
      RUN; RUN domain

    RNA

    1. XR_389285.4 RNA Sequence

    2. XR_001784724.3 RNA Sequence

    3. XR_004942538.1 RNA Sequence

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