SPSB4 Gene

Aliases
for SPSB4 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: GC03P142253 GC03P138145

Summaries
for SPSB4 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 SPSB4 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_000003.11  NC_018914.2  NT_005612.17  

SwitchGear Promoter luciferase reporter plasmid: SPSB4 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SPSB4

SPSB4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P140770:  view genomic region     (about GC identifiers)

Proteins
for SPSB4 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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1 PDB 3D structure from and Proteopedia for SPSB4:

2V24 (3D)    

Explore the universe of human proteins at neXtProt for SPSB4: NX_Q96A44

Explore proteomics data for SPSB4 at MOPED


See SPSB4 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

SPSB4 Human Recombinant Protein Products:

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	antibodies-online proteins for SPSB4 (4 products)
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	antibodies-online kits for SPSB4 (4 products)

Domains /
Families
for SPSB4 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: Q96A44

Find genes that share domains with SPSB4           About GenesLikeMe

Function
for SPSB4 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): 1 molecular function term:    About this table

genOway: Develop your customized and physiologically relevant rodent model for SPSB4

miRNA Products:		Block miRNA regulation of human, mouse, rat SPSB4 using miScript Target Protectors
		Selected qRT-PCR Assays for microRNAs that regulate SPSB4 (see all 38):
		hsa-miR-4307 hsa-miR-15a hsa-miR-29a hsa-miR-632 hsa-miR-424 hsa-miR-23a hsa-miR-15b hsa-miR-1298
		SwitchGear 3'UTR luciferase reporter plasmid: SPSB4 3' UTR sequence

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Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for SPSB4

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		Addgene plasmids for SPSB4

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for SPSB4
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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPSB4

Localization
for SPSB4 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
cytosol	2
nucleus	2
mitochondrion	1

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Gene Ontology (GO): 1 cellular component term:    About this table

Pathways & Interactions
for SPSB4 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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SuperPaths for SPSB4 About     See pathways by source

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	SuperPath	Contained pathways About
1	Class I MHC mediated antigen processing and presentation	Antigen processing- Ubiquitination and Proteasome degradation 0.84 Adaptive Immune System 0.41 Class I MHC mediated antigen processing and presentation 0.84

1 Reactome Pathway for SPSB4

Antigen processing: Ubiquitination & Proteasome degradation

    Pathway & Disease-focused RT² Profiler PCR Array including SPSB4: 

Gene Ontology (GO): 2 biological process terms:    About this table

Drugs & Compounds
for SPSB4 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 SPSB4 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 SPSB4 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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SPSB4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: GGGGCAGCCT

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Neurons
nGnG Amacrine Cells Inner Nuclear Layer
Eye (Sensory Organs)    fully expand to see all 2 entries
nGnG Amacrine Cells Inner Nuclear Layer
Lung (Respiratory System)
Basal Cells Trachea
Liver (Hepatobiliary System)
Mesothelial Cells Hepatic Mesenchyme
Brain (Nervous System)
Adult Oligodendrocyte Precursor Cells Lateral Ventricle

Primer Products:		OriGene qSTAR qPCR primer pairs in human, mouse for SPSB4
		Pre-validated RT2 qPCR Primer Assay in human, mouse, rat SPSB4
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		QuantiFast Probe-based Assays in human, mouse, rat SPSB4

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPSB4

Orthologs
for SPSB4 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 SPSB4 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 SPSB4 gene

SPSB2²  FBXO45²  SPSB1²  

Selected SIMAP similar genes for SPSB4 using alignment to 2 protein entries:     SPSB4_HUMAN (see all proteins) (see all similar genes):

COX7A2    IPO7    ZNF568    ZNF83    SPSB1    ZNF738

TMEM67    ECD    CES4A    THADA    IFT122    TGFBR3

C12orf23    DAPK2    NDUFS7    NSD1    SENP7    ZNF23

Find genes that share paralogs with SPSB4           About GenesLikeMe

Genomic Variants
for SPSB4 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 SPSB4 (see all 1882)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 3 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1917204651,2		--	138143615(+)	CAGGGC/TATCCA	1	--	int1		0	--	--	--	--
rs1846364481,2		--	138143730(+)	AATACG/TTGTCA	1	--	int1		0	--	--	--	--
rs1123980781,2	C,F	--	138143738(+)	TCAATG/ACACAC	1	--	int1		1		CSA	2
rs1488092831,2		--	138143863(+)	GGTCTC/TTCTGG	1	--	int1		0	--	--	--	--
rs1424577101,2		--	138143891(+)	GTCACC/TACCCT	1	--	int1		0	--	--	--	--
rs1889585361,2		--	138143895(+)	CTACCC/TTGGTT	1	--	int1		0	--	--	--	--
rs1513148381,2		--	138143968(+)	GACACC/GGTCCA	1	--	int1		0	--	--	--	--
rs1393668081,2		--	138143987(+)	GTTCCC/GTCATA	1	--	int1		0	--	--	--	--
rs1932686351,2	C	--	138143996(+)	TACCCA/CCTCTG	1	--	int1		0	--	--	--	--
rs1500283281,2		--	138144145(+)	CCAGAA/GCCTCT	1	--	int1		0	--	--	--	--

HapMap Linkage Disequilibrium report for SPSB4 (140770244 - 140867453 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for SPSB4:    About this table    

Variant ID	Type	Subtype	PubMed ID
esv22188	CNV	Loss	19812545
nsv877550	CNV	Gain	21882294

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing SPSB4

DNA2.0 Custom Variant and Variant Library Synthesis for SPSB4

Disorders / Diseases
for SPSB4 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB, Sets of similar genes according to GenesLikeMe)
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Publications
for SPSB4 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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1. The SPRY domain-containing SOCS box protein 1 (SSB-1) interacts with MET and enhances the hepatocyte growth factor-induced Erk-Elk-1-serum response element pathway. (PubMed id 15713673)^{1, 2, 9} Wang D.... Wu G. (J. Biol. Chem. 2005)
2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)^{1, 4} Rose J.E....Uhl G.R. (Mol. Med. 2010)
3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S.... Malek J. (Genome Res. 2004)
4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{1, 2} Ota T.... Sugano S. (Nat. Genet. 2004)
5. VHL-box and SOCS-box domains determine binding specificity for Cul2- Rbx1 and Cul5-Rbx2 modules of ubiquitin ligases. (PubMed id 15601820)^{1, 2} Kamura T.... Nakayama K.I. (Genes Dev. 2004)
6. The SOCS box: a tale of destruction and degradation. (PubMed id 12076535)^{1, 3} Kile B.T....Hilton D.J. (Trends Biochem. Sci. 2002)
7. Genetic risk factors for ischaemic stroke and its subtypes (the METASTROKE collaboration): a meta-analysis of genome-wide association studies. (PubMed id 23041239)¹ Traylor M....Markus H.S. (Lancet Neurol 2012)
8. Regulation of inducible nitric-oxide synthase by the SPRY domain- and SOCS box-containing proteins. (PubMed id 21199876)¹ Nishiya T....Miwa S. (J. Biol. Chem. 2011)
9. The SPRY domain-containing SOCS box protein SPSB2 targets iNOS for proteasomal degradation. (PubMed id 20603330)¹ Kuang Z....Nicholson S.E. (J. Cell Biol. 2010)
10. Structural basis for Par-4 recognition by the SPRY domain- and SOCS box-containing proteins SPSB1, SPSB2, and SPSB4. (PubMed id 20561531)¹ Filippakopoulos P....Bullock A.N. (J. Mol. Biol. 2010)

External Searches for SPSB4 gene

Genome Databases showing SPSB4 gene

Other Databases showing SPSB4 gene

Specialized Databases showing SPSB4 gene

Products
for SPSB4 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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