RGPD6 Gene
protein-coding GIFtS: 39
GCID: GC02M111271
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|
RANBP2-like and GRIP domain containing 6
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Aliases
for RGPD6 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| RANBP2-Like And GRIP Domain Containing 61 2 | | RANBP2-Like And GRIP Domain-Containing Protein 5/62 | | RGP61 2 3 5 | | RANBP2-Like And GRIP Domain-Containing Protein 72 | | Ran-Binding Protein 2-Like 1/22 3 | | RANBP2L13 | | RanBP2-Like 1/22 3 | | RANBP2L23 | | RGPD72 3 | | RGP53 | | RanBP2L12 3 | | RGP73 | | RanBP2L22 3 | | Sperm Membrane Protein BS-633 |
Export aliases for RGPD6 gene to outside databasesPrevious GC identifers: GC02U900804 GC02M110708 |
Summaries
for RGPD6 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
-- |
Genomic Views
for RGPD6 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_000002.11 NC_018913.1 NT_022135.16
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the RGPD6 gene promoter:
IRF-1 Nkx2-5 MEF-2A POU2F1 POU2F1a aMEF-2 Pax-4a Hlf ATF6
Other transcription factors
Search SABiosciences Chromatin IP Primers for RGPD6
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RGPD6 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 2q13 Ensembl cytogenetic band: 2q13 HGNC cytogenetic band: 2q13RGPD6 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 2 GeneLoc Exon Structure GeneLoc location for GC02M111271: view genomic region
(about GC identifiers)
Start:
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111,271,379 bp from pter |
End:
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111,336,309 bp from pter |
Size:
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64,931 bases |
Orientation:
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minus strand |
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Proteins
for RGPD6 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: RGPD5_HUMAN, Q99666 (See
protein sequence)Recommended Name: RANBP2-like and GRIP domain-containing protein 5/6 Size: 1765 amino acids; 198924 Da
Subcellular location: Cytoplasm
Miscellaneous: One of the 8 copies of RANBP2 clustered close to the chromosome 2 centromere
Secondary accessions: Q53QN2 Q53T03 Q59GM7 Q9H0B2Alternative splicing: 2 isoforms: Q99666-1 Q99666-2 Explore the universe of human proteins at neXtProt for RGPD6: NX_Q99666
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q99666
RGPD6 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001032955.1 NP_001116835.1
ENSEMBL proteins: ENSP00000330842 ENSP00000387779 ENSP00000418549 ENSP00000330023 ENSP00000410084 ENSP00000409424
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 | -- |
RGPD6 for ontologies About GeneDecksing
RGPD6 Antibody Products:
Assay Products for RGPD6: |
Protein
Domains /
Families
for RGPD6 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
RGPD6 for domains About GeneDecksing
5/7 InterPro domains/families (see all 7):Graphical View of Domain Structure for InterPro Entry Q99666ProtoNet protein and cluster: Q99666 1 Blocks protein family: IPB000156 RanBP1 domain
UniProtKB/Swiss-Prot: RGPD5_HUMAN, Q99666Similarity: Contains 1 GRIP domainSimilarity: Contains 2 RanBD1 domainsSimilarity: Contains 3 TPR repeats |
Function
for RGPD6 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 RGPD6 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RGPD6
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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Synthesis Service for RGPD6 | |  | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat RGPD6 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RGPD6 |
|
Pathways & Interactions
for RGPD6 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:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RGPD6
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
5/10 Interacting proteins for RGPD6 (Q996663 ENSP000003308424) via UniProtKB, MINT, STRING, and/or I2D (see all 10)About this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0000042 | protein targeting to Golgi |
IEA | -- |
RGPD6 for ontologies About GeneDecksing
|
Drugs & Compounds
for RGPD6 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 RGPD6
Search CenterWatch for drugs/clinical trials and news about RGPD6 / RGPD5
|
Transcripts
for RGPD6 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 RGPD6 gene (2 alternative transcripts): NM_001037866.1 NM_001123363.3 Unigene Cluster for RGPD6: RANBP2-like and GRIP domain containing 6 Hs.645445 [show with all ESTs]Unigene Representative Sequence: NM_00112336312 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000463822 ENST00000329516(uc021vmh.1) ENST00000464730(uc010yxf.1)
ENST00000437167 ENST00000484024 ENST00000330331(uc010yxg.2) ENST00000473101
ENST00000459645 ENST00000490990 ENST00000446930 ENST00000480894 ENST00000455695
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for RGPD6 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RGPD6
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): RGPD6 (NM_001037866) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for RGPD6 | | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat RGPD6 |
Additional cDNA sequence: AK056675.1 12 DOTS entries: DT.120954962 DT.92416382 DT.120992096 DT.91900581 DT.75115124 DT.95274706 DT.92409447 DT.120954921 DT.120968018 DT.120992130 DT.120954978 DT.120968046
GeneLoc Exon Structure
|
Expression
for RGPD6 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
| RGPD6 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See RGPD6 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for RGPD6
SOURCE GeneReport for Unigene cluster: Hs.645445
UniProtKB/Swiss-Prot: RGPD5_HUMAN, Q99666Tissue specificity: Expressed in testis
SABiosciences Custom PCR Arrays for RGPD6
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RGPD6
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat RGPD6 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RGPD6 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RGPD6 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RGPD6 |
Orthologs
for RGPD6 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 RGPD6 gene from 7/22 species (see all 22) About this table
ENSEMBL Gene Tree for RGPD6 (if available)
TreeFam Gene Tree for RGPD6 (if available) |
Paralogs
for RGPD6 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for RGPD6 gene
- RGPD51 2 RGPD81 2 RGPD31 2 RGPD41 2 RGPD11 2 RGPD21 2 RANBP22 RANBP12
7 SIMAP similar genes for RGPD6 using alignment to 3 protein entries: RGPD5_HUMAN (see all proteins):RGPD5 RGPD2 RGPD8 RGPD1 RGPD3 RGPD4
RANBP2
RGPD6 for paralogs About GeneDecksing
|
Genomic Variants
for RGPD6 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 2 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for RGPD6 (111271379 - 111336309 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 4 variations for RGPD6
4 CNVs: 78709 8954 78704 89888 | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for RGPD6 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
|
 RGPD6 for disorders About MalaCards
RGPD6 for disorders About GeneDecksing
OMIM gene information: 612709
OMIM disorders: --
Export disorders for RGPD6 gene to outside databases
|
Publications
for RGPD6 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 RGPD6 gene, integrated from 9 sources (see all 13):
(articles sorted by number of sources associating them with RGPD6) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)1, 2, 3 Hillier L.W....Wilson R.K. (2005)
- Complex genomic rearrangements lead to novel primate gene function. (PubMed id 15710750)1, 2, 3 Ciccarelli F.D.... Bork P. (2005)
- Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis. (PubMed id 18220336)1, 2 Cantin G.T....Yates J.R. III (2008)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)1, 2 Dephoure N.... Gygi S.P. (2008)
- Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2 Wiemann S.... Poustka A. (2001)
- Identification of a novel Ran binding protein 2 related gene (RANBP2L1) and detection of a gene cluster on human chromosome 2q11- q12. (PubMed id 9480752)1, 3 Nothwang H.G.... Hildebrandt F. (1998)
- 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)
- Systematic analysis of human protein complexes identi fies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R....Peters J.M. (2010)
- Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. (PubMed id 18691976)2 Daub H.... Mann M. (2008)
- HSP27 and HSP70 interact with CD10 in C4-2 prostate cancer cells. (PubMed id 17342744)1 Dall'Era M.A....Liu A.Y. (2007)
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External Searches for RGPD6 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing RGPD6 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing RGPD6 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing RGPD6 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 RGPD6 | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for RGPD6 gene:
Search GeneIP for patents involving RGPD6
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for RGPD6 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
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for RGPD6 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for RGPD6 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RGPD6 | | | OriGene Protein Over-expression Lysate for RGPD6 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for RGPD6 | | OriGene 3'-UTR Clone for RGPD6 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RGPD6 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for RGPD6 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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 | | | RGPD6 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RGPD6 |
|  |  |  | | | | ThermoFisher Antibodies for RGPD6 |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat RGPD6 |
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