Format

Send to:

Choose Destination

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

Support Center