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NPIPB4 Gene

protein-coding   GIFtS: 21
GCID: GC16M021848          (predicted)

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 B41 2
61E3.42
Nuclear Pore Complex Interacting Protein-Like2

External Ids:    HGNC: 419851   Entrez Gene: 4403452   Ensembl: ENSG000001858647   UniProtKB: C9JG803   

Export aliases for NPIPB4 gene to outside databases


(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 NPIPB4 Gene:
NPIPB4 (nuclear pore complex interacting protein family, member B4) 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 NPIPB4
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for NPIPB4

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat NPIPB4


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

Entrez Gene cytogenetic band: 16p12.2   Ensembl cytogenetic band:  16p12.2   HGNC cytogenetic band: 16p12.2

NPIPB4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NPIPB4 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M021848:  view genomic region     (about GC identifiers)

Start:
21,845,884 bp from pter      End:
21,892,148 bp from pter
Size:
46,265 bases      Orientation:
minus 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, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: NPIB4_HUMAN, C9JG80 (See protein sequence)
Recommended Name: Nuclear pore complex-interacting protein family member B4  
Size: 1138 amino acids; 126699 Da

Explore the universe of human proteins at neXtProt for NPIPB4: NX_C9JG80

Explore proteomics data for NPIPB4 at MOPED


See NPIPB4 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


ENSEMBL proteins: 
 ENSP00000442776   ENSP00000339196   ENSP00000429543   ENSP00000439732   ENSP00000429523  
 ENSP00000439720   ENSP00000433301   ENSP00000442065   ENSP00000443445   ENSP00000404439  
 ENSP00000349936   ENSP00000392155   ENSP00000439166  

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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 C9JG80

ProtoNet protein and cluster: C9JG80

UniProtKB/Swiss-Prot: NPIB4_HUMAN, C9JG80
Similarity: Belongs to the NPIP family


Find genes that share domains with NPIPB4           About GenesLikeMe


(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.)
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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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Subcellular locations from UniProtKB/Swiss-Prot
NPIB4_HUMAN, C9JG80: Membrane; Single-pass membrane protein (Potential)

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

GO IDQualified GO termEvidencePubMed IDs
GO:0016021integral component of membrane IEA--

Find genes that share ontologies with NPIPB4           About GenesLikeMe


(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 NPIPB4
Interactions:

    Search GeneGlobe Interaction Network for NPIPB4

(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 drugs & compounds from Enzo Life Sciences
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Browse Tocris compounds for NPIPB4 (NPIB4)



(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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Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 23):
ENST00000165086 ENST00000545367 ENST00000542133 ENST00000543660 ENST00000541329
ENST00000539318 ENST00000341400 ENST00000518761 ENST00000543654 ENST00000520808
ENST00000542338 ENST00000539191 ENST00000536041 ENST00000529969 ENST00000540103
ENST00000543449 ENST00000541674 ENST00000544693
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2 AceView cDNA sequences:

AW849367 AW849175 

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: --

NPIPB4 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

NPIPB4 Protein Expression
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In Situ
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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 NPIPB4 gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chimpanzee
(Pan troglodytes)
Mammalia LOC7507871 putative NPIP-like protein LOC613037-like 89.77(n)
81.8(a)
  750787  XM_003317896.2  XP_003317944.2 


ENSEMBL Gene Tree for NPIPB4 (if available)
TreeFam Gene Tree for NPIPB4 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for NPIPB4 gene
NPIPB31 2  NPIPB51 2  NPIPB111 2  LOC4403532  NPIPA12  NPIPA52  NPIPA22  NPIPB92  
PKD1P12  ENSG000002330242  NPIPB152  NPIPA32  NPIPA72  LOC1019299102  LOC7299782  LOC7301532  
NPIPB82  NPIPB72  NPIPB62  NPIPA82  
Selected SIMAP similar genes for NPIPB4 using alignment to 9 protein entries:     NPIB4_HUMAN (see all proteins) (see all similar genes):
A-575C2.4    NPIPB5    LOC101929910    NPIPB3    NPIPB11    NPIPA3
NPIPB8    ACSM2B    NPIPA2    NPIPB6    NPIPA7    NPIPA5
NPIPB9    Nbla00537    NPIPA1    A-589H1.1    LOC339047    NPIPB15

Find genes that share paralogs with NPIPB4           About GenesLikeMe


1 Pseudogenes.org Pseudogene for NPIPB4
PGOHUM00000260907


(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 NPIPB4 (see all 101)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 16 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2018857941,2
F--21847702(+) TCATCG/CGCTGA 2 /P /R mis11Minor allele frequency- C:0.00EU 505
rs1998680291,2
F--21847708(+) GCTGAT/GGGTGG 2 /H /P mis11Minor allele frequency- G:0.01EU 497
rs2020111551,2
F--21847857(+) TTGATG/ATTATC 2 /N syn11Minor allele frequency- A:0.09EU 304
rs8402761,2
F--21848602(+) CGGCAC/G/TGTGTC 3 H P R mis11NA 4
rs10639141,2
C,F--21848644(-) AGCTCC/TACCCT 2 P L mis13Minor allele frequency- T:0.50NA 6
rs749836991,2
F--21848670(-) TGTCTG/ACTCAC 2 /L syn12Minor allele frequency- A:0.33NA 6
rs760922341,2
C--21848694(+) TTGAGA/TTTATC 2 K N mis11Minor allele frequency- T:0.00NA 2
rs763480731,2
F--21848703(-) TCAGCG/AGATGA 2 /A syn13Minor allele frequency- A:0.50NA 8
rs786618231,2
C--21848727(+) GTGAGG/CAGACA 2 /L syn11Minor allele frequency- C:0.50NA 2
rs784858841,2
F--21848736(+) CACTCG/AGGAGG 2 /P syn13Minor allele frequency- A:0.50NA 6

HapMap Linkage Disequilibrium report for NPIPB4 (21845884 - 21892148 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for NPIPB4: --
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing NPIPB4
DNA2.0 Custom Variant and Variant Library Synthesis for NPIPB4

(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 NPIPB4 gene integrated from 10 sources:
(articles sorted by number of sources associating them with NPIPB4)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The sequence and analysis of duplication-rich human chromosome 16. (PubMed id 15616553)2 Martin J.... Pennacchio L.A. (Nature 2004)
  2. Genome duplications and other features in 12 Mb of DNA sequence from human chromosome 16p and 16q. (PubMed id 10493829)1 Loftus B.J.... Adams M.D. (Genomics 1999)
  3. Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain. (PubMed id 9039502)1 Nagase T.... Nomura N. (DNA Res. 1996)

(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: 440345 HGNC: 41985 AceView: LOC440345.2 Ensembl:ENSG00000185864 euGenes: HUgn440345
ECgene: NPIPB4 H-InvDB: NPIPB4

(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 NPIPB4 gene:
Search GeneIP for patents involving NPIPB4

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, 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
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