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NPIPA3 Gene

protein-coding   GIFtS: 18
GCID: GC16P014869

Nuclear Pore Complex Interacting Protein Family, Member...

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(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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Aliases
Nuclear Pore Complex Interacting Protein Family, Member A31 2
Nuclear Pore Complex-Interacting Protein Family Member A32

External Ids:    HGNC: 419781   Entrez Gene: 6427782   Ensembl: ENSG000002247127   UniProtKB: F8WFD23   

Export aliases for NPIPA3 gene to outside databases

Previous GC identifer: GC16P014857


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for NPIPA3 Gene:
NPIPA3 (nuclear pore complex interacting protein family, member A3) is a protein-coding gene. An important paralog of this gene is LOC440353.


(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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Regulatory elements:
   Search for regulatory transcription factor binding sites for NPIPA3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for NPIPA3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat NPIPA3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 16p13.11   Ensembl cytogenetic band:  16p13.11   HGNC cytogenetic band: 16p13.11

NPIPA3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NPIPA3 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16P014869:  view genomic region     (about GC identifiers)

Start:
14,802,801 bp from pter      End:
14,820,195 bp from pter
Size:
17,395 bases      Orientation:
plus strand

(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, and/or antibodies-online,
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, LSBio, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: NPIA3_HUMAN, F8WFD2 (See protein sequence)
Recommended Name: Nuclear pore complex-interacting protein family member A3  
Size: 350 amino acids; 40061 Da

Explore the universe of human proteins at neXtProt for NPIPA3: NX_F8WFD2

REFSEQ proteins: NP_001264252.1  
ENSEMBL proteins: 
 ENSP00000434172   ENSP00000437133   ENSP00000448841  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro protein domain:
 IPR009443 NPIP

Graphical View of Domain Structure for InterPro Entry F8WFD2

ProtoNet protein and cluster: F8WFD2

UniProtKB/Swiss-Prot: NPIA3_HUMAN, F8WFD2
Similarity: Belongs to the NPIP family


Find genes that share domains with NPIPA3           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, 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.)
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Animal Models:
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(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 GeneDecks, 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).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for NPIPA3
Interactions:

    Search GeneGlobe Interaction Network for NPIPA3

(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)
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Browse Tocris compounds for NPIPA3 (NPIA3)



(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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REFSEQ mRNAs for NPIPA3 gene: 
NM_001277323.1  

3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000526520 ENST00000531598 ENST00000552140(uc002dcr.3)
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GeneLoc Exon Structure


(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™, 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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See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

NPIPA3 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for NPIPA3
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In Situ
Assay Products:
 

 
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(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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This gene was present in the common ancestor of human and chimp.

Orthologs for NPIPA3 gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chimpanzee
(Pan troglodytes)
Mammalia --
Uncharacterized protein
84(a)
1 → many
GL392393.1(966-7814)


ENSEMBL Gene Tree for NPIPA3 (if available)
TreeFam Gene Tree for NPIPA3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for NPIPA3 gene
NPIPA21 2  NPIPA11 2  NPIPA81 2  NPIPA71 2  NPIPA51 2  LOC4403532  NPIPB92  PKD1P12  
ENSG000002330242  NPIPB152  NPIPB32  LOC1019299102  LOC7299782  NPIPB52  LOC7301532  NPIPB112  
NPIPB82  NPIPB42  NPIPB72  NPIPB62  
Selected SIMAP similar genes for NPIPA3 using alignment to 2 protein entries:     NPIA3_HUMAN (see all proteins) (see all similar genes):
Nbla00537    NPIPA2    A-589H1.1    NPIPA1    LOC339047    NPIPA5
NPIPA8    NPIPA7    LOC101929910    NPIPB4    NPIPB5    NPIPB3
NPIPB11    A-575C2.4    NPIPB6    A-761H5.4    LOC728741    NPIPB8

Find genes that share paralogs with NPIPA3           About GenesLikeMe



(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 NPIPA3 (see all 29)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 16 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2019121901,2
F--14712960(+) GTGGCG/AGTAAT 1 -- int11Minor allele frequency- A:0.00EU 575
rs1995597181,2
F--14713034(+) GGCAGC/TGGAGC 2 A V mis11Minor allele frequency- T:0.37EU 369
rs2000003051,2
F--14713312(+) GTCTGC/TTCACT 2 L F mis11Minor allele frequency- T:0.15EU 349
rs2011733741,2
C,F--14713372(+) CTCCCA/GGTGTG 2 K E mis11Minor allele frequency- G:0.28EU 223
rs2011285961,2
----14712902(+) TGGAGA/GATGGA 1 -- int10--------
rs20199831,2
----14702846(-) tttttC/Tttttt 3 -- int10--------
rs286747221,2
----14697582(+) CTGTCA/GCCTAG 2 -- us2k10--------
rs2003504221,2
----14697169(+) TATATA/TTTTTT 2 -- us2k10--------
rs2020080611,2
----14713145(+) TATAAT/CTGATA 2 /T /I mis11Minor allele frequency- C:0.00EU 271
rs3738537791,2
----14713537(+) TAATCA/GAGGGG 1 -- ds50010--------

HapMap Linkage Disequilibrium report for NPIPA3 (14802801 - 14820195 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for NPIPA3: --
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing NPIPA3
DNA2.0 Custom Variant and Variant Library Synthesis for NPIPA3

(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.)
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(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 NPIPA3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with NPIPA3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Novel retinal and cone photoreceptor transcripts revealed by human macular expression profiling. (PubMed id 18055785)1 Hornan D.M....Webster A.R. (amp 2007)
  2. The sequence and analysis of duplication-rich human chromosome 16. (PubMed id 15616553)2 Martin J.... Pennacchio L.A. (Nature 2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 642778 HGNC: 41978 Ensembl:ENSG00000224712 euGenes: HUgn642778 ECgene: NPIPA3
H-InvDB: NPIPA3

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for NPIPA3 gene:
Search GeneIP for patents involving NPIPA3

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(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, LSBio, eBioscience, antibodies-online, 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 inGenious Targeting Laboratory, genOway)
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