SNX4 Gene
protein-coding GIFtS: 53
GCID: GC03M125196
|
|
sorting nexin 4
| |
Aliases
for SNX4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Sorting Nexin 41 2 | | ATG24B1 2 | | Sorting Nexin-42 |
Export aliases for SNX4 gene to outside databasesPrevious GC identifers: GC03M121915 GC03M126447 GC03M126486 GC03M126648 GC03M122541 |
Summaries
for SNX4 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for SNX4:
This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is aphosphoinositide binding domain, and are involved in intracellular trafficking. This protein associated with the longisoform of the leptin receptor and with receptor tyrosine kinases for platelet-derived growth factor, insulin, andepidermal growth factor in cell cultures, but its function is unknown. This protein may form oligomeric complexes withfamily members. Two transcript variants, one protein coding and the other non-protein coding, have been found for thisgene. (provided by RefSeq, Nov 2012)
UniProtKB/Swiss-Prot: SNX4_HUMAN, O95219Function: May be involved in several stages of intracellular trafficking. Plays a role in recycling endocytosedtransferrin receptor and prevent its degradation
Gene Wiki entry for SNX4
|
Genomic Views
for SNX4 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 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000003.11 NC_018914.1 NT_005612.16
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SNX4 gene promoter:
TBP Elk-1 Brachyury NRSF form 1 NRSF form 2 Evi-1 AREB6 Pax-3 RSRFC4
Other transcription factors
Search SABiosciences Chromatin IP Primers for SNX4
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNX4 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 3q21.2 Ensembl cytogenetic band: 3q21.2 HGNC cytogenetic band: 3q21.2SNX4 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 GC03M125196: view genomic region
(about GC identifiers)
Start:
|
125,165,494 bp from pter |
End:
|
125,239,058 bp from pter |
Size:
|
73,565 bases |
Orientation:
|
minus strand |
|
Proteins
for SNX4 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
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, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: SNX4_HUMAN, O95219 (See
protein sequence)Recommended Name: Sorting nexin-4 Size: 450 amino acids; 51909 Da
Subunit: Interacts with WWC1/KIBRA. Identified in a complex with WWC1/KIBRA and dynein components DYNLL1 and DYNC1I2
Subcellular location: Early endosome membrane; Peripheral membrane protein; Cytoplasmic side. Note=Also detected on ajuxtanuclear endocytic recycling compartment (ERC)
Secondary accessions: B3KMH0 D3DNA3Explore the universe of human proteins at neXtProt for SNX4: NX_O95219
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_O95219
SNX4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_003785.1
ENSEMBL proteins: ENSP00000251775 ENSP00000420526 ENSP00000420175 ENSP00000440824
Human Recombinant Protein Products for SNX4:
Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view): About this table
SNX4 for ontologies About GeneDecksing
SNX4 Antibody Products:
Assay Products for SNX4: |
Protein
Domains /
Families
for SNX4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SNX4 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry O95219ProtoNet protein and cluster: O95219 1 Blocks protein family: IPB001683 Phox-like
UniProtKB/Swiss-Prot: SNX4_HUMAN, O95219Domain: The PX domain binds phosphatidylinositol 3-phosphate which is necessary for peripheral membrane localizationSimilarity: Belongs to the sorting nexin familySimilarity: Contains 1 PX (phox homology) domain |
Function
for SNX4 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase,
shRNA from
OriGene,
Sirion Biotech,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Sirion Biotech,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
Sirion Biotech,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Molecular Function:
UniProtKB/Swiss-Prot Summary: SNX4_HUMAN, O95219Function: May be involved in several stages of intracellular trafficking. Plays a role in recycling endocytosedtransferrin receptor and prevent its degradation Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table
SNX4 for ontologies About GeneDecksing
Phenotypes:
2 GenomeRNAi human phenotypes for SNX4:
1 MGI phenotypic allele  for Snx4 (no phenotypes)
SNX4 for phenotypes About GeneDecksing
Animal Models:
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SNX4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SNX4
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: SNX4 (NM_003794) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SNX4 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SNX4 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SNX4 |
|
Pathways & Interactions
for SNX4 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
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 Mar 2013 via
Entrez Gene).
About This Section
|
Unified GeneCards pathways About this table
See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | TGF-beta Receptor Signaling Pathway | |
1  BioSystems Pathway for SNX4
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SNX4
STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)
5/57 Interacting proteins for SNX4 (O952192, 3 ENSP000002517754) via UniProtKB, MINT, STRING, and/or I2D (see all 57)About this table
Gene Ontology (GO): 4 biological process terms (GO ID links to tree view): About this table
SNX4 for ontologies About GeneDecksing
|
Drugs & Compounds
for SNX4 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for SNX4
Search CenterWatch for drugs/clinical trials and news about SNX4
|
Transcripts
for SNX4 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 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,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
Sirion Biotech,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for SNX4 gene: NM_003794.3 Unigene Cluster for SNX4: Sorting nexin 4 Hs.507243 [show with all ESTs]Unigene Representative Sequence: NM_0037946 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000251775(uc003eib.3 uc011bkf.2) ENST00000471751 ENST00000482965
ENST00000473417 ENST00000465505 ENST00000536067
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SNX4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SNX4
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: SNX4 (NM_003794) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SNX4 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SNX4 |
Additional cDNA sequence: AF065485.1 AF130078.1 AK001835.1 AK298972.1 BC018762.1 NR_073435.1 9 DOTS entries: DT.214715 DT.95329781 DT.100793071 DT.100793072 DT.100026174 DT.100701685 DT.120867095 DT.120867062 DT.91804345 24/201 AceView cDNA sequences (see all 201): AI125497 BC018762 BE272609 AV715043 CA335534 N44484 BM766192 BI753292 BQ938587 N63608 BU675853 CR599850 CB159329 AW403356 BI859777 BX462567 BX099262 AU156431 CR596306 BM711348 NM_003794 CF147210 AV651215 AW051709
GeneLoc Exon Structure
2 Alternative Splicing Database (ASD) splice patterns (SP) for SNX4 About this scheme
| ExUns: | 1 | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10 | ^ | 11 | ^ | 12 | ^ | 13a | · | 13b | ^ | 14 | ^ | 15a | · | 15b |
|---|
|
| SP1: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for SNX4
|
Expression
for SNX4 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 GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| SNX4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GCATTTCAGG
About this image
See SNX4 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SNX4
SOURCE GeneReport for Unigene cluster: Hs.507243
SABiosciences Custom PCR Arrays for SNX4
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SNX4
Browse OriGene validated miRNA SYBR primer pairs
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Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SNX4 |
Orthologs
for SNX4 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)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for SNX4 gene from 6/23 species (see all 23) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
SNX41 |
sorting nexin 4 |
82.03(n)
91.9(a) |
|
424260 XM_422107.3 XP_422107.2 |
African clawed frog
(Xenopus laevis) |
Amphibia |
Xl.70622 |
Xenopus laevis transcribed sequence with moderate similarity more |
78.12(n) |
|
BX852584.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
wufb92d092 |
Transcribed sequence with moderate similarity to protein more |
75.03(n) |
|
57043900 |
honey bee
(Apis mellifera) |
Insecta |
-- |
-- |
48(a) |
1 ↔ 1 |
GroupUn.859(1129-4266) |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
SNX16 |
sorting nexin 1 |
19(a) |
possible ortholog |
5(1856008-1858785) |
rice
(Oryza sativa) |
Liliopsida |
-- |
sorting nexin 1, putative, expressed |
21(a) |
possible ortholog |
1(37314248-37319474) |
ENSEMBL Gene Tree for SNX4 (if available)
TreeFam Gene Tree for SNX4 (if available) |
Paralogs
for SNX4 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SNX4 gene
- SNX302 SNX72
SNX4 for paralogs About GeneDecksing
|
Genomic Variants
for SNX4 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, 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) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| 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 |
|---|
HapMap Linkage Disequilibrium report for SNX4 (125165494 - 125239058 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for SNX4
1 CNV: 31116 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SNX4 |
|
Disorders
/ Diseases
for SNX4 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.)
About This Section
|
 SNX4 for disorders About MalaCards
SNX4 for disorders About GeneDecksing
OMIM gene information: 605931
OMIM disorders: --
1 disease from the University of Copenhagen DISEASES database for SNX4:Batten disease Human Genome Epidemiology (HuGE) Navigator: SNX4 (1 document)
Export disorders for SNX4 gene to outside databases
|
Publications
for SNX4 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)
About This Section
|
PubMed articles for SNX4 gene, integrated from 9 sources (see all 24):
(articles sorted by number of sources associating them with SNX4) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Identification of a family of sorting nexin molecules and characterization of their association with receptors. (PubMed id 9819414)1, 2, 3, 9 Haft C.R.... Taylor S.I. (1998)
- SNX4 coordinates endosomal sorting of TfnR with dynein-mediated transport into the endocytic recycling compartment. (PubMed id 17994011)1, 2, 9 Traer C.J....Cullen P.J. (2007)
- 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. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- SNX-BAR-mediated endosome tubulation is co-ordinated w ith endosome maturation. (PubMed id 21973056)1 van Weering J.R....Cullen P.J. (2012)
- Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
|
External Searches for SNX4 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SNX4 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SNX4 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SNX4 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for SNX4 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SNX4 gene:
Search GeneIP for patents involving SNX4
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SNX4 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
About This Section
|
 | |
 | |
 |
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