SPARCL1 Gene

Aliases
for SPARCL1 gene

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
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Previous GC identifers: GC04M088552 GC04M088696 GC04M088852 GC04M088751 GC04M088613 GC04M084140

Summaries
for SPARCL1 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for SPARCL1 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:

NC_000004.11  NC_018915.2  NT_016354.20  

SwitchGear Promoter luciferase reporter plasmid: SPARCL1 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SPARCL1

SPARCL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M088394:  view genomic region     (about GC identifiers)

Proteins
for SPARCL1 gene

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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Explore the universe of human proteins at neXtProt for SPARCL1: NX_Q14515

Explore proteomics data for SPARCL1 at MOPED

Post-translational modifications: 

SPARCL1 Human Recombinant Protein Products:

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Domains /
Families
for SPARCL1 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
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ProtoNet protein and cluster: Q14515

Find genes that share domains with SPARCL1           About GenesLikeMe

Function
for SPARCL1 gene

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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     Gene Ontology (GO): 2 molecular function terms:    About this table

(inferred from 1 allele) (MGI details for Sparcl1)

genOway: Develop your customized and physiologically relevant rodent model for SPARCL1

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		hsa-miR-1290 hsa-miR-511 hsa-miR-448 hsa-miR-4289 hsa-miR-573 hsa-miR-3616-5p hsa-miR-3647-5p
		SwitchGear 3'UTR luciferase reporter plasmid: SPARCL1 3' UTR sequence

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Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for SPARCL1

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		Sino Biological Human cDNA Clone for SPARCL1
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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPARCL1

Localization
for SPARCL1 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Subcellular locations from COMPARTMENTS: 

Compartment	Confidence
extracellular	2

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Gene Ontology (GO): 2 cellular component terms:    About this table

Pathways & Interactions
for SPARCL1 gene

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GenesLikeMe, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Gene Ontology (GO): 1 biological process term:    About this table

Drugs & Compounds
for SPARCL1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, Sets of similar genes according to GenesLikeMe)
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Transcripts
for SPARCL1 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Expression
for SPARCL1 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GenesLikeMe, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SPARCL1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: TGCACTTCAA

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Brain (Nervous System)    fully expand to see all 14 entries
Adult Endothelial Cells Blood Brain Barrier
Cerebral Cortex
Anterior astroglia-like cells
Bone (Muscoskeletal System)    fully expand to see all 4 entries
TGFbeta3+BMP7-induced chondrocytes
Cartilage (Muscoskeletal System)    fully expand to see all 3 entries
TGFbeta3+BMP7-induced chondrocytes
Peripheral Nervous System (Nervous System)    fully expand to see all 2 entries
Pro-myelinating Schwann Cells Peripheral Nerve Domain
Eye (Sensory Organs)    fully expand to see all 2 entries
Mature Horizontal Cells Inner Nuclear Layer

Primer Products:		OriGene qPCR primer pairs and template standards for SPARCL1 OriGene qSTAR qPCR primer pairs in human, mouse for SPARCL1
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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPARCL1

Orthologs
for SPARCL1 gene

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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Paralogs
for SPARCL1 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
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Paralogs for SPARCL1 gene

SPARC²  

1 SIMAP similar gene for SPARCL1 using alignment to 10 protein entries:     SPRL1_HUMAN (see all proteins):

SPARC

Find genes that share paralogs with SPARCL1           About GenesLikeMe

Genomic Variants
for SPARCL1 gene

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SPARCL1 (see all 1227)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 4 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs99950831,2	C,F,A	--	88393987(+)	GACCTG/ACTGGG	2	--	int1		11		NA WA CSA EA	372
rs1859358831,2		--	88394036(+)	GGATCA/TCAGGT	2	--	int1		0	--	--	--	--
rs757777001,2	F	--	88394288(+)	AATGAG/ACACCT	2	--	int1		1		WA	118
rs738396561,2	C,F	--	88394348(+)	TTTTCT/ACAACC	2	--	int1		1		WA	2
rs1123540471,2	C	--	88394352(+)	TCAACCA/-CACAC	2	--	int1		1		CSA	2
rs1999515421,2	C	--	88394353(+)	CACAC-/AC/CA          TTAAG	2	--	int1		0	--	--	--	--
rs1163792061,2	F	--	88394501(+)	TTATGG/AACTCT	2	--	ut31		1		WA	118
rs348834601,2	C	--	88394759(+)	TTAAT-/GTTAA   ATACCTGGTGCA	2	--	cds1		1		CSA	2
rs2012766471,2	C	--	88394761(+)	AATGTG/TAAATA	2	--	ut31		0	--	--	--	--
rs2010768871,2	C	--	88394762(-)	GTATTG/TAACAT	2	--	ut31		0	--	--	--	--

HapMap Linkage Disequilibrium report for SPARCL1 (88394487 - 88452213 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for SPARCL1: --

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing SPARCL1

DNA2.0 Custom Variant and Variant Library Synthesis for SPARCL1

Disorders / Diseases
for SPARCL1 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB, Sets of similar genes according to GenesLikeMe)
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7 Novoseek inferred disease relationships for SPARCL1 gene    About this table

Publications
for SPARCL1 gene

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
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PubMed articles for SPARCL1 gene, integrated from 10 sources (see all 55): (articles sorted by number of sources associating them with SPARCL1)

Utopia: connect your pdf to the dynamic world of online information

1. Cloning from purified high endothelial venule cells of hevin, a close relative of the antiadhesive extracellular matrix protein SPARC. (PubMed id 7600298)^{1, 2, 3, 9} Girard J.-P. and Springer T.A. (Immunity 1995)
2. Sequential use of transcriptional profiling, expression quantitative trait mapping, and gene association implicates MMP20 in human kidney aging. (PubMed id 19834535)^{1, 4} Wheeler H.E....Kim S.K. (PLoS Genet. 2009)
3. Association analysis of schizophrenia on 18 genes involved in neuronal migration: MDGA1 as a new susceptibility gene. (PubMed id 18384059)^{1, 4} KAohler A.K....Andreassen O.A. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2008)
4. Candidate gene analysis of SPARCL1 gene in patients with multiple sclerosis. (PubMed id 17825989)^{1, 4} Scalabrini D....Galimberti D. (Neurosci. Lett. 2007)
5. Matricellular hevin regulates decorin production and collagen assembly. (PubMed id 16844696)^{1, 3} Sullivan M.M....Sage E.H. (J. Biol. Chem. 2006)
6. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PubMed id 16335952)^{1, 2} Liu T.... Smith R.D. (J. Proteome Res. 2005)
7. cDNA subtraction library construction using a magnet-assisted subtraction technique (MAST). (PubMed id 8488563)^{1, 3} Schraml P....Ludwig C.U. (Trends Genet. 1993)
8. Hevin is down-regulated in many cancers and is a negative regulator of cell growth and proliferation. (PubMed id 10735494)^{1, 9} Claeskens A....Kutoh E. (Br. J. Cancer 2000)
9. Modulation of endothelial cell adhesion by hevin, an acidic protein associated with high endothelial venules. (PubMed id 8626806)^{1, 9} Girard J.P. and Springer T.A. (J. Biol. Chem. 1996)
10. SC1/hevin. An extracellular calcium-modulated protein that binds collagen I. (PubMed id 12538579)^{1, 9} Hambrock H.O....Hartmann U. (J. Biol. Chem. 2003)

External Searches for SPARCL1 gene

Genome Databases showing SPARCL1 gene

Other Databases showing SPARCL1 gene

Specialized Databases showing SPARCL1 gene

Products
for SPARCL1 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, GeneTex, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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