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

Gene ID: 315174, updated on 30-Mar-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
Ensembl: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 extrinsic component 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, Apr 2022]
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, ENSRNOT00000017727.6
    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
    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
    Related
    ENSRNOP00000096909.1
    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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