SFXN1 Gene

Aliases
for SFXN1 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: GC05U990169 GC05P175644 GC05P174840 GC05P174886 GC05P170004

Summaries
for SFXN1 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 SFXN1 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_000005.9  NT_023133.14  NC_018916.2  

SwitchGear Promoter luciferase reporter plasmid: SFXN1 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SFXN1

SFXN1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05P174838:  view genomic region     (about GC identifiers)

Proteins
for SFXN1 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 SFXN1: NX_Q9H9B4

Explore proteomics data for SFXN1 at MOPED

Post-translational modifications: 

SFXN1 Human Recombinant Protein Products:

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	Cloud-Clone Corp. Proteins for SFXN1
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	antibodies-online proteins for SFXN1 (2 products)
	antibodies-online peptides for SFXN1

SFXN1 Antibody Products:

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SFXN1 Assay Products:

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	antibodies-online kits for SFXN1 (13 products)

Domains /
Families
for SFXN1 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: Q9H9B4

Find genes that share domains with SFXN1           About GenesLikeMe

Function
for SFXN1 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 SFXN1

miRNA Products:		miRTarBase miRNAs that target SFXN1: hsa-mir-92b-3p (MIRT040567), hsa-mir-31-5p (MIRT049905), hsa-mir-1 (MIRT001335), hsa-mir-16-5p (MIRT031779), hsa-mir-501-5p (MIRT041142), hsa-mir-421 (MIRT039440), hsa-mir-28-3p (MIRT038951), hsa-mir-21-5p (MIRT030923), hsa-mir-22-3p (MIRT050470)
		Block miRNA regulation of human, mouse, rat SFXN1 using miScript Target Protectors
		Selected qRT-PCR Assays for microRNAs that regulate SFXN1 (see all 30):
		hsa-miR-30c hsa-miR-142-5p hsa-miR-3673 hsa-miR-562 hsa-miR-15a hsa-miR-503 hsa-miR-16-1* hsa-miR-30d
		SwitchGear 3'UTR luciferase reporter plasmid: SFXN1 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for SFXN1
		Predesigned siRNA for gene silencing in human, mouse, rat SFXN1

Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for SFXN1

Clone Products:		OriGene clones in human, mouse for SFXN1 (see all 7) OriGene ORF clones in mouse, rat for SFXN1 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector: SFXN1 (NM_022754)
		Browse Sino Biological Human cDNA Clones
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for SFXN1
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SFXN1

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for SFXN1
		Browse ESI BIO Cell Lines and PureStem Progenitors for SFXN1

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SFXN1

Localization
for SFXN1 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
mitochondrion	5
cytosol	2
peroxisome	2
golgi apparatus	1
nucleus	1

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Gene Ontology (GO): 4 cellular component terms:    About this table

Pathways & Interactions
for SFXN1 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): 5 biological process terms:    About this table

Drugs & Compounds
for SFXN1 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 SFXN1 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 SFXN1 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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SFXN1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: AAGTGTAGAT

About this image

Liver (Hepatobiliary System)
Periportal Hepatocytes Liver Lobule
Neurons
Mature Horizontal Cells Inner Nuclear Layer
Eye (Sensory Organs)
Mature Horizontal Cells Inner Nuclear Layer

Primer Products:		OriGene qPCR primer pairs and template standards for SFXN1 OriGene qSTAR qPCR primer pairs in human, mouse for SFXN1
		Pre-validated RT2 qPCR Primer Assay in human, mouse, rat SFXN1
		QuantiTect SYBR Green Assays in human, mouse, rat SFXN1
		QuantiFast Probe-based Assays in human, mouse, rat SFXN1

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SFXN1

Orthologs
for SFXN1 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 SFXN1 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 SFXN1 gene

SFXN4²  SFXN5²  SFXN2²  SFXN3²  

3 SIMAP similar genes for SFXN1 using alignment to 6 protein entries:     SFXN1_HUMAN (see all proteins):

SFXN3    SFXN2    SFXN5

Find genes that share paralogs with SFXN1           About GenesLikeMe

Genomic Variants
for SFXN1 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 SFXN1 (see all 1344)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 5 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1176756801,2	C,F	--	174903547(+)	GGAGCG/AGAGCC	1	--	us2k1		1		EA	120
rs1141754571,2	F	--	174903644(+)	TGACCA/TTAGAC	1	--	us2k1		1		WA	118
rs1439232631,2		--	174903728(+)	ACTAAA/TTGTTT	1	--	us2k1		0	--	--	--	--
rs2673491,2	C,F,A,H	--	174903767(-)	CTATAT/AGACAA	1	--	us2k1		29		NS EA NA WA CSA	2669
rs1135902981,2	C,F	--	174903779(+)	ATTACT/CGTGGC	1	--	us2k1		2		CSA WA	120
rs1807412231,2		--	174903976(+)	TTGCTC/TACAAG	1	--	us2k1		0	--	--	--	--
rs1162640371,2	F	--	174904080(+)	CACCTA/GGGTTG	1	--	us2k1		1		WA	118
rs1866526761,2		--	174904110(+)	CAGCCA/GACTGC	1	--	us2k1		0	--	--	--	--
rs1506313071,2		--	174904180(+)	CATACA/GCCACC	1	--	us2k1		0	--	--	--	--
rs584980061,2	C	--	174904278(+)	CACTCC/TGGCCT	1	--	us2k1		2		WA	120

HapMap Linkage Disequilibrium report for SFXN1 (174904065 - 174956745 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for SFXN1:    About this table    

Variant ID	Type	Subtype	PubMed ID
nsv469707	CNV	Loss	16826518

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing SFXN1

DNA2.0 Custom Variant and Variant Library Synthesis for SFXN1

Disorders / Diseases
for SFXN1 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 SFXN1 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. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PubMed id 20877624)^{1, 4} Hendrickson S.L....O'Brien S.J. (PLoS ONE 2010)
2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{1, 2} Ota T.... Sugano S. (Nat. Genet. 2004)
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. Drafting the CLN3 protein interactome in SH-SY5Y human neuroblastoma cells: a label-free quantitative proteomics approach. (PubMed id 23464991)¹ Scifo E....Lalowski M. (J. Proteome Res. 2013)
5. A census of human soluble protein complexes. (PubMed id 22939629)¹ Havugimana P.C....Emili A. (Cell 2012)
6. PKCI/ promotes oncogenic functions of ATF2 in the nucleus while blocking its apoptotic function at mitochondria. (PubMed id 22304920)¹ Lau E....Ronai Z.A. (Cell 2012)
7. N-terminal acetylome analyses and functional insights of the N- terminal acetyltransferase NatB. (PubMed id 22814378)² Van Damme P....Aldabe R. (Proc. Natl. Acad. Sci. U.S.A. 2012)
8. Initial characterization of the human central proteome. (PubMed id 21269460)² Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)
9. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)¹ Wagner S.A....Choudhary C. (amp 2011)
10. Nuclear import of histone deacetylase 5 by requisite nuclear localization signal phosphorylation. (PubMed id 21081666)¹ Greco T.M....Cristea I.M. (amp 2011)

External Searches for SFXN1 gene

Genome Databases showing SFXN1 gene

Other Databases showing SFXN1 gene

Specialized Databases showing SFXN1 gene

Products
for SFXN1 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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