ARHGEF39 Gene
protein-coding GIFtS: 39
GCID: GC09M035658
|
|
Rho guanine nucleotide exchange factor (GEF) 39(Previous name: chromosome 9 open reading frame 100 )
(Previous symbol: C9orf100)
| |
Aliases
for ARHGEF39 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Rho Guanine Nucleotide Exchange Factor (GEF) 391 2 | | RP11-331F9.72 | | C9orf1001 2 3 | | Rho Guanine Nucleotide Exchange Factor 392 | | FLJ146421 | | Vav-Like Protein C9orf1002 | | Chromosome 9 Open Reading Frame 1001 | | |
Export aliases for ARHGEF39 gene to outside databases |
Summaries
for ARHGEF39 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: ARG39_HUMAN, Q8N4T4Function: Promotes cell proliferation
|
Genomic Views
for ARHGEF39 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_000009.11 NC_018920.1 NT_008413.18
Regulatory elements:
 Search SABiosciences Regulatory transcription factor binding sites for ARHGEF39
Other transcription factors
Search SABiosciences Chromatin IP Primers for ARHGEF39
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ARHGEF39 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 9p13.3 Ensembl cytogenetic band: 9p13.3 HGNC cytogenetic band: 9p13.3ARHGEF39 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 9 GeneLoc Exon Structure GeneLoc location for GC09M035658: view genomic region
(about GC identifiers)
Start:
|
35,658,872 bp from pter |
End:
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35,675,863 bp from pter |
Size:
|
16,992 bases |
Orientation:
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minus strand |
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Proteins
for ARHGEF39 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: ARG39_HUMAN, Q8N4T4 (See
protein sequence)Recommended Name: Rho guanine nucleotide exchange factor 39 Size: 335 amino acids; 38295 Da
Subcellular location: Cell membrane
Sequence caution: Sequence=AAR01010.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;Sequence=AAR01011.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: Q49AG0 Q6TPQ2 Q96ST6Alternative splicing: 4 isoforms: Q8N4T4-1 Q8N4T4-2 Q8N4T4-3 Q8N4T4-4 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for ARHGEF39: NX_Q8N4T4
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8N4T4
ARHGEF39 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_116207.2
ENSEMBL proteins: ENSP00000436756 ENSP00000436519 ENSP00000367638 ENSP00000367648 ENSP00000344922
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005622 | intracellular |
IEA | -- | | GO:0005886 | plasma membrane |
IDA | -- |
ARHGEF39 for ontologies About GeneDecksing
ARHGEF39 Antibody Products:
Assay Products for ARHGEF39: |
Protein
Domains /
Families
for ARHGEF39 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
ARHGEF39 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8N4T4ProtoNet protein and cluster: Q8N4T4 2 Blocks protein families: IPB000219 DH domain IPB001849 Pleckstrin-like
UniProtKB/Swiss-Prot: ARG39_HUMAN, Q8N4T4Similarity: Contains 1 DH (DBL-homology) domainSimilarity: Contains 1 PH domain |
Function
for ARHGEF39 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
|
Function Summary:
UniProtKB/Swiss-Prot: ARG39_HUMAN, Q8N4T4Function: Promotes cell proliferation
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 ARHGEF39 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ARHGEF39 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ARHGEF39 |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005089 | Rho guanyl-nucleotide exchange factor activity |
IEA | -- | | GO:0005543 | phospholipid binding |
IEA | -- |
ARHGEF39 for ontologies About GeneDecksing
|
Pathways & Interactions
for ARHGEF39 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 ARHGEF39
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
4 Interacting proteins for ARHGEF39 (Q8N4T42, 3 ENSP000003676384) via UniProtKB, MINT, STRING, and/or I2DAbout this table
Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0030335 | positive regulation of cell migration |
IDA | -- | | GO:0035023 | regulation of Rho protein signal transduction |
IEA | -- |
ARHGEF39 for ontologies About GeneDecksing
|
Drugs & Compounds
for ARHGEF39 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 ARHGEF39
Search CenterWatch for drugs/clinical trials and news about ARHGEF39 / ARG39
|
Transcripts
for ARHGEF39 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 ARHGEF39 gene: NM_032818.2 Unigene Cluster for ARHGEF39: Rho guanine nucleotide exchange factor (GEF) 39 Hs.744402 [show with all ESTs]Unigene Representative Sequence: NM_0328188 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000490638(uc003zxl.3) ENST00000475323 ENST00000378387(uc003zxm.1 uc011loz.1)
ENST00000490970 ENST00000488918 ENST00000468876 ENST00000378395 ENST00000343259
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ARHGEF39 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ARHGEF39 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript Custom all cDNA clones Services for ARHGEF39 | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for ARHGEF39 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ARHGEF39 |
Additional cDNA sequence: AK001187.1 AK225501.1 AK225529.1 AK303513.1 BC033666.1 9 DOTS entries: DT.92417363 DT.101983915 DT.100751488 DT.101983914 DT.97845312 DT.121152905 DT.121152875 DT.121152882 DT.92027373 24/158 AceView cDNA sequences (see all 158): BC033666 AA356801 AA380418 AI732738 AY390225 BE559864 BE018581 AA459295 AI821531 AW674851 BQ064919 AA827647 AA430511 BE267550 AA746595 AA714519 BC038673 AW135205 BF436061 AA252797 BM680405 BQ056724 BQ063924 AW404968
GeneLoc Exon Structure
5/7 Alternative Splicing Database (ASD) splice patterns (SP) for ARHGEF39 (see all 7) About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2 | ^ | 3a | · | 3b | ^ | 4 | ^ | 5a | · | 5b | ^ | 6a | · | 6b | ^ | 7 | ^ | 8a | · | 8b | ^ | 9 | ^ | 10a | · | 10b |
|---|
|
| SP1: | | | | | | | | | | | - | | | | | | - | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | - | | | | | | - | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | - | | | | - | | | | | | - | | - | | - | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | - | | - | | - | | - | | - | | | | | | | |
ECgene alternative splicing isoforms for ARHGEF39
|
Expression
for ARHGEF39 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
| See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --
See ARHGEF39 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for ARHGEF39
SOURCE GeneReport for Unigene cluster: Hs.744402
UniProtKB/Swiss-Prot: ARG39_HUMAN, Q8N4T4Tissue specificity: Strongly expressed in hepatocellular carcinoma (HCC) compared with their non-cancerous counterparts
SABiosciences Custom PCR Arrays for ARHGEF39
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for ARHGEF39
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat ARHGEF39 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ARHGEF39 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ARHGEF39 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ARHGEF39 |
Orthologs
for ARHGEF39 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 animals.
Orthologs for ARHGEF39 gene from 5/20 species (see all 20) About this table
ENSEMBL Gene Tree for ARHGEF39 (if available)
TreeFam Gene Tree for ARHGEF39 (if available) |
Paralogs
for ARHGEF39 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for ARHGEF39 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 9 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for ARHGEF39 (35658872 - 35675863 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for ARHGEF39: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ARHGEF39 |
|
Disorders
/ Diseases
for ARHGEF39 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
| -- |
Publications
for ARHGEF39 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 ARHGEF39 gene, integrated from 9 sources (see all 12):
(articles sorted by number of sources associating them with ARHGEF39) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- C9orf100, a new member of the Dbl-family guanine nucle otide exchange factors, promotes cell proliferation and migration in hepatocellu lar carcinoma. (PubMed id 22327280)1, 2, 3 Wang H....Cai B. (2012)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- 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 and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
- Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (2005)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
- DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)2 Humphray S.J.... Dunham I. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for ARHGEF39 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing ARHGEF39 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing ARHGEF39 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing ARHGEF39 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 ARHGEF39 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for ARHGEF39 gene:
Search GeneIP for patents involving ARHGEF39
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for ARHGEF39 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 ARHGEF39 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for ARHGEF39 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for ARHGEF39 | | | OriGene Protein Over-expression Lysate for ARHGEF39 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for ARHGEF39 | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ARHGEF39 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ARHGEF39 | | | 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 | | | OriGene Purified Protein for ARHGEF39 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat ARHGEF39 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ARHGEF39 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ARHGEF39 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat ARHGEF39 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ARHGEF39 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ARHGEF39 |
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 | | | ARHGEF39 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ARHGEF39 |
|  |  |  | | | | Search ThermoFisher Antibodies for ARHGEF39 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ARHGEF39 |
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