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    Scube1 signal peptide, CUB domain and EGF like domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315174, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Scube1provided by RGD
    Official Full Name
    signal peptide, CUB domain and EGF like domain containing 1provided by RGD
    Primary source
    RGD:1309015
    See related
    EnsemblRapid:ENSRNOG00000010617 AllianceGenome:RGD:1309015
    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
    Summary
    Predicted to enable identical protein binding activity. Predicted to be involved in signal transduction. Predicted to act upstream of or within positive regulation of smoothened signaling pathway. Predicted to be located in external side of plasma membrane. Predicted to be active in cell surface and extracellular space. Orthologous to human SCUBE1 (signal peptide, CUB domain and EGF like domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Uterus (RPKM 34.5), Lung (RPKM 30.9) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Scube1 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (116639027..116760986, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (114759016..114880995, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (124501988..124620755, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479949 Neighboring gene tubulin tyrosine ligase like 12 Neighboring gene translocator protein Neighboring gene uncharacterized LOC134479951 Neighboring gene uncharacterized LOC120093700 Neighboring gene metallophosphoesterase domain containing 1 Neighboring gene uncharacterized LOC102549885 Neighboring gene EF-hand calcium binding domain 6

    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 value of signal peptide-CUB-EGF domain-containing protein 1 and oxidative stress parameters in the diagnosis of acute mesenteric ischemia. Turkmen S, et al. Acad Emerg Med, 2013 Mar. PMID 23517257
    2. Transcriptional profiling of inductive mesenchyme to identify molecules involved in prostate development and disease. Vanpoucke G, et al. Genome Biol, 2007. PMID 17922897, Free PMC Article
    3. Identification of a novel family of cell-surface proteins expressed in human vascular endothelium. Yang RB, et al. J Biol Chem, 2002 Nov 29. PMID 12270931
    4. Disruption of Scube2 Impairs Endochondral Bone Formation. Lin YC, et al. J Bone Miner Res, 2015 Jul. PMID 25639508
    5. 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A pronounced rise in SCUBE-1 levels was determined with 6-hour acute mesenteric ischemia in rats.
      Title: The value of signal peptide-CUB-EGF domain-containing protein 1 and oxidative stress parameters in the diagnosis of acute mesenteric ischemia.
    2. Scube1 encodes a novel stromal molecule that is involved in prostate development and tumorigenesis.
      Title: Transcriptional profiling of inductive mesenchyme to identify molecules involved in prostate development and disease.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    signal peptide, CUB and EGF-like domain-containing protein 1
    Names
    signal peptide, CUB domain, EGF-like 1

    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_001134884.1 → NP_001128356.1  signal peptide, CUB and EGF-like domain-containing protein 1 precursor

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A8I6AMT3, F1M987
      Related
      ENSRNOP00000017727.5, ENSRNOT00000017727.7
      Conserved Domains (5) summary
      cd00041
      Location:828 → 939
      CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
      pfam07699
      Location:776 → 823
      GCC2_GCC3; GCC2 and GCC3
      pfam12947
      Location:37 → 72
      EGF_3; EGF domain
      pfam14670
      Location:275 → 310
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cl00057
      Location:348 → 384
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

    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_086025.1 Reference GRCr8

      Range
      116639027..116760986 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039079288.2 → XP_038935216.1  signal peptide, CUB and EGF-like domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AMT3
      Conserved Domains (4) summary
      pfam07699
      Location:776 → 823
      Ephrin_rec_like; Putative ephrin-receptor like
      pfam12947
      Location:37 → 72
      EGF_3; EGF domain
      pfam14670
      Location:275 → 310
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cl00057
      Location:348 → 384
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

    2. XM_039079290.2 → XP_038935218.1  signal peptide, CUB and EGF-like domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I6A5S5, A0A8I6AMT3
      Related
      ENSRNOP00000088785.1, ENSRNOT00000112140.2
      Conserved Domains (5) summary
      cd00041
      Location:717 → 828
      CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
      pfam07699
      Location:665 → 712
      Ephrin_rec_like; Putative ephrin-receptor like
      pfam12947
      Location:37 → 72
      EGF_3; EGF domain
      pfam14670
      Location:164 → 199
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cl00057
      Location:237 → 273
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

    3. XM_006242092.5 → XP_006242154.1  signal peptide, CUB and EGF-like domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AMT3
      Conserved Domains (5) summary
      cd00041
      Location:798 → 909
      CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
      pfam07699
      Location:746 → 793
      GCC2_GCC3; GCC2 and GCC3
      pfam12947
      Location:37 → 72
      EGF_3; EGF domain
      pfam14670
      Location:245 → 280
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cl00057
      Location:318 → 354
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

    4. XM_039079292.2 → XP_038935220.1  signal peptide, CUB and EGF-like domain-containing protein 1 isoform X4

      Conserved Domains (3) summary
      pfam12947
      Location:37 → 72
      EGF_3; EGF domain
      pfam14670
      Location:275 → 310
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cl00057
      Location:348 → 384
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
    Nucleotide Protein Strain
    Heading Accession and Version

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