NBPF3 Gene
protein-coding GIFtS: 47
GCID: GC01P021766
|
|
neuroblastoma breakpoint family, member 3
| |
Aliases
for NBPF3 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Neuroblastoma Breakpoint Family, Member 31 2 | | AE21 2 | | Protein SHIIIa42 3 | | Neuroblastoma Breakpoint Family Member 32 | | Protein AE23 |
Export aliases for NBPF3 gene to outside databasesPrevious GC identifers: GC01P021512 GC01P021639 GC01P020010 |
Summaries
for NBPF3 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Gene Wiki entry for NBPF3
|
Genomic Views
for NBPF3 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_000001.10 NC_018912.1 NT_004610.19
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the NBPF3 gene promoter:
Max1 p53 AP-4 AREB6 CREB HEN1 deltaCREB GR-alpha
Other transcription factors
Search SABiosciences Chromatin IP Primers for NBPF3
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NBPF3 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p36.12 Ensembl cytogenetic band: 1p36.12 HGNC cytogenetic band: 1p36.12NBPF3 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01P021766: view genomic region
(about GC identifiers)
Start:
|
21,766,621 bp from pter |
End:
|
21,811,498 bp from pter |
Size:
|
44,878 bases |
Orientation:
|
plus strand |
|
Proteins
for NBPF3 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: NBPF3_HUMAN, Q9H094 (See
protein sequence)Recommended Name: Neuroblastoma breakpoint family member 3 Size: 633 amino acids; 72951 Da
Subcellular location: Cytoplasm (Probable)
Miscellaneous: Encoded by one of the numerous copies of NBPF genes clustered in the p36, p12 and q21 region of thechromosome 1
Sequence caution: Sequence=AAH24011.1; Type=Frameshift; Positions=252; Sequence=CAH72077.1; Type=Erroneous gene modelprediction; Sequence=CAH72078.1; Type=Erroneous gene model prediction;
Secondary accessions: A8K965 B4DSP2 I3L0I8 Q3BBW1 Q5VTG2 Q5VTG3 Q5VTG4 Q8IX78 Q8ND86 Q8TC96Alternative splicing: 5 isoforms: Q9H094-1 Q9H094-2 Q9H094-3 Q9H094-4 Q9H094-5 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for NBPF3: NX_Q9H094
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9H094
NBPF3 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (3 alternative transcripts):
NP_001243345.1 NP_001243346.1 NP_115640.1
ENSEMBL proteins: ENSP00000316739 ENSP00000340336 ENSP00000391865 ENSP00000415711 ENSP00000316782
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005737 | cytoplasm |
IEA | -- |
NBPF3 for ontologies About GeneDecksing
NBPF3 Antibody Products:
Assay Products for NBPF3: |
Protein
Domains /
Families
for NBPF3 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
NBPF3 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q9H094ProtoNet protein and cluster: Q9H094 UniProtKB/Swiss-Prot: NBPF3_HUMAN, Q9H094Similarity: Belongs to the NBPF familySimilarity: Contains 5 NBPF domains |
Function
for NBPF3 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
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 NBPF3
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for NBPF3
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: NBPF3 (NM_032264) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for NBPF3 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat NBPF3 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NBPF3 |
1 GenomeRNAi human phenotype for NBPF3:
|
Pathways & Interactions
for NBPF3 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
|
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for NBPF3
STRING Interaction
Network Preview (showing 4 interactants - click image to see more details)
5/8 Interacting proteins for NBPF3 (Q9H0942, 3 ENSP000003167824) via UniProtKB, MINT, STRING, and/or I2D (see all 8)About this table
|
Drugs & Compounds
for NBPF3 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 NBPF3
Search CenterWatch for drugs/clinical trials and news about NBPF3
|
Transcripts
for NBPF3 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,
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 NBPF3 gene (3 alternative transcripts): NM_001256416.1 NM_001256417.1 NM_032264.3 Unigene Cluster for NBPF3: Neuroblastoma breakpoint family, member 3 Hs.325422 [show with all ESTs]Unigene Representative Sequence: NR_04617612 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000475869 ENST00000318220(uc001ber.3 uc001bes.3 uc010odm.2)
ENST00000478653 ENST00000485941 ENST00000342104(uc009vqb.3) ENST00000486229
ENST00000434838 ENST00000467103 ENST00000469876 ENST00000477050 ENST00000454000
ENST00000318249
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for NBPF3
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for NBPF3
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: NBPF3 (NM_032264) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for NBPF3 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat NBPF3 |
Additional cDNA sequence: AF379629.1 AK095602.1 AK098438.1 AK292580.1 AK299840.1 AK314597.1 AL136890.1 AL834330.1 AY598326.1 AY894564.1 BC024011.2 NR_046176.1 17 DOTS entries: DT.102844330 DT.100642381 DT.121451686 DT.121451697 DT.121451700 DT.121451706 DT.91661120 DT.95071746 DT.121451666 DT.121451691 DT.121451711 DT.121346666 DT.121451670 DT.121451675 DT.121451677 DT.121451710 DT.449222 24/59 AceView cDNA sequences (see all 59): NM_032264 AL136890 AA256559 BG028790 BF431439 BX339658 AA768120 AI378933 AI273699 CB148704 AY598326 AL834330 BE615208 BX283934 BE615260 BE615086 AI678218 BM817729 BI909818 BV173019 AA372620 CB118666 BC024011 W58508
GeneLoc Exon Structure
5/15 Alternative Splicing Database (ASD) splice patterns (SP) for NBPF3 (see all 15) About this scheme
| ExUns: | 1a | · | 1b | · | 1c | · | 1d | · | 1e | ^ | 2a | · | 2b | · | 2c | ^ | 3a | · | 3b | ^ | 4 | ^ | 5a | · | 5b | · | 5c | ^ | 6 | ^ | 7a | · | 7b | ^ | 8a | · | 8b | ^ | 9a | · | 9b | · | 9c | ^ | 10a | · | 10b | ^ | 11a | · | 11b | ^ |
|---|
|
| SP1: | | | | | | | | | | | | | | | | | - | | - | | - | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| ExUns: | 12 | ^ | 13a | · | 13b | · | 13c | ^ | 14 | ^ | 15 |
|---|
|
| SP1: | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | |
ECgene alternative splicing isoforms for NBPF3
|
Expression
for NBPF3 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
| NBPF3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See NBPF3 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for NBPF3
SOURCE GeneReport for Unigene cluster: Hs.325422
UniProtKB/Swiss-Prot: NBPF3_HUMAN, Q9H094Tissue specificity: Expressed in testis and fetal heart, as well as in non small cell lung carcinoma and neuroblastomacell line
SABiosciences Custom PCR Arrays for NBPF3
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for NBPF3
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat NBPF3 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat NBPF3 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat NBPF3 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NBPF3 |
Orthologs
for NBPF3 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
|
--
ENSEMBL Gene Tree for NBPF3 (if available)
TreeFam Gene Tree for NBPF3 (if available) |
Paralogs
for NBPF3 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for NBPF3 gene
- NBPF62 NBPF202 NBPF82 ENSG000002326372 NBPF162 NBPF92 NBPF42 NBPF112
- NBPF242 NBPF152 NBPF122 NBPF142 NBPF102
18 SIMAP similar genes for NBPF3 using alignment to 1 protein entry: NBPF3_HUMAN:NBPF21 NBPF24 NBPF8 NBPF10 LOC101059961 NBPF20
NBPF12 NBPF14 NBPF9 NBPF1 AL592307.2 NBPF7
NBPF11 NBPF15 NBPF16 NBPF5 NBPF4 NBPF6
NBPF3 for paralogs About GeneDecksing
1 Pseudogenes.org Pseudogene for NBPF3
PGOHUM00000243928
|
Genomic Variants
for NBPF3 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 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for NBPF3 (21766621 - 21811498 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 22 variations for NBPF3
12 CNVs: 3285 68208 31611 84125 74404 84120 30378 74409 84126 84122 47845 68207
9 Indels: 84124 74406 24068 84123 74408 74405 97315 84121 74407
1 Inversion: 59651 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing NBPF3 |
|
Disorders
/ Diseases
for NBPF3 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
|
NBPF3 for disorders About GeneDecksing
OMIM gene information: 612992
OMIM disorders: --
6  diseases for NBPF3: About MalaCardsneuroblastoma non-small cell lung carcinoma lung carcinoma homocysteine
lung cancer carcinoma
Export disorders for NBPF3 gene to outside databases
|
Publications
for NBPF3 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 NBPF3 gene, integrated from 9 sources (see all 22):
(articles sorted by number of sources associating them with NBPF3) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- A novel gene family NBPF: intricate structure generated by gene duplications during primate evolution. (PubMed id 16079250)1, 2, 3 Vandepoele K.... van Roy F. (2005)
- Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (2001)
- Suppression subtractive hybridization and expression profiling identifies a unique set of genes overexpressed in non-small-cell lung cancer. (PubMed id 15334068)1, 2 Petroziello J.... Carter P. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- The proteomic analysis of endogenous FAT10 substrates identifies p62/SQSTM1 as a substrate of FAT10ylation. (PubMed id 22797925)1 Aichem A....Groettrup M. (2012)
- Genome-wide association study identifies loci influenc ing concentrations of liver enzymes in plasma. (PubMed id 22001757)1 Chambers J.C....Kooner J.S. (2011)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
- Common genetic variants associate with serum phosphor us concentration. (PubMed id 20558539)1 Kestenbaum B....Fox C.S. (2010)
- Genome-wide association study of vitamin B6, vitamin B12, folate, and homocysteine blood concentrations. (PubMed id 19303062)1 Tanaka T....Ferrucci L. (2009)
|
External Searches for NBPF3 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing NBPF3 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing NBPF3 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing NBPF3 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 NBPF3 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for NBPF3 gene:
Search GeneIP for patents involving NBPF3
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for NBPF3 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, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, 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
About This Section
|
 | |
 | |
 |
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