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SPARCL1 SPARC like 1 [ Homo sapiens (human) ]

Gene ID: 8404, updated on 1-Aug-2020

Summary

Official Symbol
SPARCL1provided by HGNC
Official Full Name
SPARC like 1provided by HGNC
Primary source
HGNC:HGNC:11220
See related
Ensembl:ENSG00000152583 MIM:606041
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SC1; MAST9; PIG33; MAST 9
Expression
Broad expression in brain (RPKM 777.2), endometrium (RPKM 500.6) and 20 other tissues See more
Orthologs

Genomic context

See SPARCL1 in Genome Data Viewer
Location:
4q22.1
Exon count:
14
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (87473330..87529503, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (88394483..88450798, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene nudix hydrolase 9 Neighboring gene uncharacterized LOC105377321 Neighboring gene dentin sialophosphoprotein Neighboring gene uncharacterized LOC105377323 Neighboring gene dentin matrix acidic phosphoprotein 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide association study identifies new susceptibility loci for esophageal adenocarcinoma and Barrett's esophagus.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
collagen binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular matrix binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
anatomical structure development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular protein metabolic process TAS
Traceable Author Statement
more info
 
post-translational protein modification TAS
Traceable Author Statement
more info
 
signal transduction IEA
Inferred from Electronic Annotation
more info
 
synaptic membrane adhesion IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
collagen-containing extracellular matrix IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
 
extracellular region HDA PubMed 
extracellular space HDA PubMed 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
SPARC-like protein 1
Names
SPARC-like 1 (hevin)
high endothelial venule protein
proliferation-inducing protein 33

NCBI Reference Sequences (RefSeq)

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_001128310.2NP_001121782.1  SPARC-like protein 1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001121782.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1). Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    BC022484, CA442598, DC403565, DC421365, X86693
    Consensus CDS
    CCDS3622.1
    UniProtKB/Swiss-Prot
    Q14515
    UniProtKB/TrEMBL
    A0A024RDE1
    Related
    ENSP00000414856.1, ENST00000418378.5
    Conserved Domains (3) summary
    cd00252
    Location:514662
    SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...
    pfam10591
    Location:513648
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
    cl00097
    Location:433512
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
  2. NM_001291976.1NP_001278905.1  SPARC-like protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001278905.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. Variants 3 and 4 encode the same isoform (2), which has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AK316533, AL833430, CA442598, DA283085, DC403565, X86693
    Consensus CDS
    CCDS77939.1
    UniProtKB/Swiss-Prot
    Q14515
    UniProtKB/TrEMBL
    B7ZB68
    Related
    ENSP00000422903.1, ENST00000503414.5
    Conserved Domains (3) summary
    cd00252
    Location:389537
    SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...
    pfam10591
    Location:388523
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
    cl00097
    Location:308387
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
  3. NM_001291977.1NP_001278906.1  SPARC-like protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001278906.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. Variants 3 and 4 encode the same isoform (2), which has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AK304494, CA442598, DC403565, X86693
    Consensus CDS
    CCDS77939.1
    UniProtKB/Swiss-Prot
    Q14515
    Conserved Domains (3) summary
    cd00252
    Location:389537
    SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...
    pfam10591
    Location:388523
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
    cl00097
    Location:308387
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
  4. NM_004684.5NP_004675.3  SPARC-like protein 1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_004675.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AK304494, BC022484, BC033721, CA442598, DA283085, DC403565, X86693
    Consensus CDS
    CCDS3622.1
    UniProtKB/Swiss-Prot
    Q14515
    UniProtKB/TrEMBL
    A0A024RDE1, Q8N4S1
    Related
    ENSP00000282470.6, ENST00000282470.10
    Conserved Domains (3) summary
    cd00252
    Location:514662
    SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...
    pfam10591
    Location:513648
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
    cl00097
    Location:433512
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    87473330..87529503 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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