Svep1 sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Svep1provided by RGD
Full Name: sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1provided by RGD
Primary source: RGD:1588987
See related: EnsemblRapid:ENSRNOG00000033110 AllianceGenome:RGD:1588987
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable chromatin binding activity and integrin binding activity involved in cell-matrix adhesion. Predicted to be involved in several processes, including negative regulation of complement activation, classical pathway; negative regulation of vasoconstriction; and positive regulation of platelet activation. Predicted to act upstream of or within several processes, including Tie signaling pathway; lymph circulation; and lymph vessel development. Predicted to be located in cytoplasm; extracellular region; and nucleus. Predicted to be active in extracellular space. Orthologous to human SVEP1 (sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Spleen (RPKM 218.0), Lung (RPKM 123.9) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q24

Exon count:: 48

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (77606523..77783292, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (72811200..72988185, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (75147245..75320873, complement)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

SVEP1 is expressed in activated skeletal muscle satellite cells prior to their determination to the myogenic lineage.
Title: SVEP1 is a novel marker of activated pre-determined skeletal muscle satellite cells.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables integrin binding	ISO Inferred from Sequence Orthology more info
enables integrin binding involved in cell-matrix adhesion	IEA Inferred from Electronic Annotation more info
enables integrin binding involved in cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
enables integrin binding involved in cell-matrix adhesion	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in Tie signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within Tie signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell-matrix adhesion	IEA Inferred from Electronic Annotation more info
involved_in epidermis development	IBA Inferred from Biological aspect of Ancestor more info
involved_in epidermis development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epidermis development	ISO Inferred from Sequence Orthology more info
involved_in gene expression	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
involved_in lymph circulation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lymph circulation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymph vessel development	ISO Inferred from Sequence Orthology more info
involved_in lymph vessel morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in lymph vessel morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lymph vessel morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of vasoconstriction	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of vasoconstriction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of vasoconstriction	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of platelet activation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of platelet activation	ISO Inferred from Sequence Orthology more info
involved_in tight junction organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tight junction organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISS Inferred from Sequence or Structural Similarity more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 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)

NM_001419684.1 → NP_001406613.1 sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

P0C6B8

Related

ENSRNOP00000050549.6, ENSRNOT00000047200.7

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

NC_086023.1 Reference GRCr8

Range

77606523..77783292 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039111040.2 → XP_038966968.1 sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 isoform X1

Conserved Domains (9) summary

PHA02639
Location:1752 → 1925

PHA02639; EEV host range protein; Provisional

PHA02817
Location:1357 → 1475

PHA02817; EEV Host range protein; Provisional

smart00179
Location:784 → 822

EGF_CA; Calcium-binding EGF-like domain

PHA02927
Location:1440 → 1648

PHA02927; secreted complement-binding protein; Provisional

cd00054
Location:384 → 420

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00152
Location:463 → 661

PTX; Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated ...

pfam00008
Location:236 → 264

EGF; EGF-like domain

pfam00084
Location:1699 → 1750

Sushi; Sushi repeat (SCR repeat)

pfam07699
Location:152 → 199

Ephrin_rec_like; Putative ephrin-receptor like