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Aliases for RAD9A Gene

Aliases for RAD9A Gene

  • RAD9 Checkpoint Clamp Component A 2 3 5
  • DNA Repair Exonuclease Rad9 Homolog A 3 4
  • HRAD9 3 4
  • Cell Cycle Checkpoint Control Protein RAD9A 3
  • RAD9 Homolog A (S. Pombe) 2
  • RAD9 (S. Pombe) Homolog 2
  • RAD9 Homolog A 3
  • EC 3.1.11.2 4
  • RAD9 3

External Ids for RAD9A Gene

Previous HGNC Symbols for RAD9A Gene

  • RAD9

Previous GeneCards Identifiers for RAD9A Gene

  • GC11P067409
  • GC11P066934
  • GC11P066915
  • GC11P067159
  • GC11P063487

Summaries for RAD9A Gene

Entrez Gene Summary for RAD9A Gene

  • This gene product is highly similar to Schizosaccharomyces pombe rad9, a cell cycle checkpoint protein required for cell cycle arrest and DNA damage repair. This protein possesses 3' to 5' exonuclease activity, which may contribute to its role in sensing and repairing DNA damage. It forms a checkpoint protein complex with RAD1 and HUS1. This complex is recruited by checkpoint protein RAD17 to the sites of DNA damage, which is thought to be important for triggering the checkpoint-signaling cascade. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Aug 2011]

GeneCards Summary for RAD9A Gene

RAD9A (RAD9 Checkpoint Clamp Component A) is a Protein Coding gene. Diseases associated with RAD9A include Alpha-Thalassemia/Mental Retardation Syndrome. Among its related pathways are DNA Double-Strand Break Repair and Regulation of TP53 Activity. GO annotations related to this gene include protein kinase binding and SH3 domain binding. An important paralog of this gene is RAD9B.

UniProtKB/Swiss-Prot for RAD9A Gene

  • Component of the 9-1-1 cell-cycle checkpoint response complex that plays a major role in DNA repair. The 9-1-1 complex is recruited to DNA lesion upon damage by the RAD17-replication factor C (RFC) clamp loader complex. Acts then as a sliding clamp platform on DNA for several proteins involved in long-patch base excision repair (LP-BER). The 9-1-1 complex stimulates DNA polymerase beta (POLB) activity by increasing its affinity for the 3-OH end of the primer-template and stabilizes POLB to those sites where LP-BER proceeds; endonuclease FEN1 cleavage activity on substrates with double, nick, or gap flaps of distinct sequences and lengths; and DNA ligase I (LIG1) on long-patch base excision repair substrates. The 9-1-1 complex is necessary for the recruitment of RHNO1 to sites of double-stranded breaks (DSB) occurring during the S phase. RAD9A possesses 3->5 double stranded DNA exonuclease activity. Its phosphorylation by PRKCD may be required for the formation of the 9-1-1 complex.

Gene Wiki entry for RAD9A Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RAD9A Gene

Genomics for RAD9A Gene

Regulatory Elements for RAD9A Gene

Enhancers for RAD9A Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH11G066965 1.9 FANTOM5 Ensembl ENCODE dbSUPER 26.2 -348.8 -348819 6.8 HDGF FOXA2 MLX ARID4B SIN3A DMAP1 YY1 SLC30A9 FOS DEK RAD9A EIF1AD CLCF1 ENSG00000258297 PC RBM14 RCE1 BRMS1 DPP3 ENSG00000245156
GH11G066342 1.8 FANTOM5 ENCODE dbSUPER 22.9 -969.3 -969327 11.8 MLX CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC TBX21 RIN1 EIF1AD ENSG00000258297 ACTN3 RAD9A RBM14 KAT5 ENSG00000255320 LOC105369352 CTSF
GH11G066933 1.3 ENCODE dbSUPER 25.4 -382.4 -382413 4.6 FOXA2 PKNOX1 ATF1 ARNT BRCA1 TCF12 GATA2 ELK1 FOS KDM4B RAD9A EIF1AD RBM14 ENSG00000258297 PC SYT12 LRFN4 RCE1 LOC105369352 RHOD
GH11G066891 1.9 FANTOM5 Ensembl ENCODE dbSUPER 13.3 -425.3 -425280 1.8 HDGF PKNOX1 MLX CREB3L1 ARID4B SIN3A FEZF1 SLC30A9 ZNF766 FOS ENSG00000254461 RAD9A LRFN4 RBM4B RNU7-23P SYT12 ACTN3 CDK2AP2 CLCF1 RBM4
GH11G067414 1.3 ENCODE dbSUPER 18.6 +100.5 100468 6.9 HDGF PKNOX1 CREB3L1 ZFP64 SIN3A ZNF143 SP3 SP5 REST SMARCB1 RAD9A PTPRCAP RBM14 SSH3 CARNS1 ANKRD13D C11orf80 PPP1CA
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RAD9A on UCSC Golden Path with GeneCards custom track

Promoters for RAD9A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000041101 -152 1601 MLX ARNT AGO1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF207 FOS

Transcription factor binding sites by QIAGEN in the RAD9A gene promoter:

Genomic Location for RAD9A Gene

Chromosome:
11
Start:
67,317,871 bp from pter
End:
67,398,412 bp from pter
Size:
80,542 bases
Orientation:
Plus strand

Genomic View for RAD9A Gene

Genes around RAD9A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RAD9A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RAD9A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RAD9A Gene

Proteins for RAD9A Gene

  • Protein details for RAD9A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99638-RAD9A_HUMAN
    Recommended name:
    Cell cycle checkpoint control protein RAD9A
    Protein Accession:
    Q99638
    Secondary Accessions:
    • B2RCZ8
    • Q6FI29
    • Q96C41

    Protein attributes for RAD9A Gene

    Size:
    391 amino acids
    Molecular mass:
    42547 Da
    Quaternary structure:
    • Component of the toroidal 9-1-1 (RAD9-RAD1-HUS1) complex, composed of RAD9A, RAD1 and HUS1. The 9-1-1 complex associates with LIG1, POLB, FEN1, RAD17, HDAC1, RPA1 and RPA2. The 9-1-1 complex associates with the RAD17-RFC complex. RAD9A interacts with BCL2L1, FEN1, PRKCD, RAD9B, HUS1, RAD1, ABL1, RPA1, ATAD5 and RPA2. Interacts with DNAJC7 and RHNO1.

    Three dimensional structures from OCA and Proteopedia for RAD9A Gene

neXtProt entry for RAD9A Gene

Post-translational modifications for RAD9A Gene

  • Constitutively phosphorylated on serine and threonine amino acids in absence of DNA damage. Hyperphosphorylated by PRKCD and ABL1 upon DNA damage. Its phosphorylation by PRKCD may be required for the formation of the 9-1-1 complex.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RAD9A Gene

Domains & Families for RAD9A Gene

Gene Families for RAD9A Gene

Protein Domains for RAD9A Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RAD9A Gene

Graphical View of Domain Structure for InterPro Entry

Q99638

UniProtKB/Swiss-Prot:

RAD9A_HUMAN :
  • Belongs to the rad9 family.
Family:
  • Belongs to the rad9 family.
genes like me logo Genes that share domains with RAD9A: view

Function for RAD9A Gene

Molecular function for RAD9A Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Exonucleolytic cleavage in the 3- to 5-direction to yield nucleoside 5-phosphates.
UniProtKB/Swiss-Prot Function:
Component of the 9-1-1 cell-cycle checkpoint response complex that plays a major role in DNA repair. The 9-1-1 complex is recruited to DNA lesion upon damage by the RAD17-replication factor C (RFC) clamp loader complex. Acts then as a sliding clamp platform on DNA for several proteins involved in long-patch base excision repair (LP-BER). The 9-1-1 complex stimulates DNA polymerase beta (POLB) activity by increasing its affinity for the 3-OH end of the primer-template and stabilizes POLB to those sites where LP-BER proceeds; endonuclease FEN1 cleavage activity on substrates with double, nick, or gap flaps of distinct sequences and lengths; and DNA ligase I (LIG1) on long-patch base excision repair substrates. The 9-1-1 complex is necessary for the recruitment of RHNO1 to sites of double-stranded breaks (DSB) occurring during the S phase. RAD9A possesses 3->5 double stranded DNA exonuclease activity. Its phosphorylation by PRKCD may be required for the formation of the 9-1-1 complex.

Enzyme Numbers (IUBMB) for RAD9A Gene

Gene Ontology (GO) - Molecular Function for RAD9A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004518 nuclease activity IEA --
GO:0004527 exonuclease activity IEA --
GO:0005515 protein binding IPI 10359610
GO:0008408 3-5 exonuclease activity IDA 10713044
GO:0008853 exodeoxyribonuclease III activity IEA --
genes like me logo Genes that share ontologies with RAD9A: view
genes like me logo Genes that share phenotypes with RAD9A: view

Animal Models for RAD9A Gene

MGI Knock Outs for RAD9A:

Animal Model Products

CRISPR Products

miRNA for RAD9A Gene

miRTarBase miRNAs that target RAD9A

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RAD9A Gene

Localization for RAD9A Gene

Subcellular locations from UniProtKB/Swiss-Prot for RAD9A Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RAD9A gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for RAD9A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 12628935
GO:0005654 nucleoplasm TAS,IDA --
GO:0005737 cytoplasm IEA --
GO:0030896 checkpoint clamp complex IBA,IEA --
genes like me logo Genes that share ontologies with RAD9A: view

Pathways & Interactions for RAD9A Gene

genes like me logo Genes that share pathways with RAD9A: view

SIGNOR curated interactions for RAD9A Gene

Activates:
Is activated by:
Other effect:

Gene Ontology (GO) - Biological Process for RAD9A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000076 DNA replication checkpoint TAS 8943031
GO:0000077 DNA damage checkpoint IEA,IMP 21659603
GO:0006260 DNA replication TAS --
GO:0006281 DNA repair TAS,IBA --
GO:0006974 cellular response to DNA damage stimulus IEA,IDA 9872989
genes like me logo Genes that share ontologies with RAD9A: view

Drugs & Compounds for RAD9A Gene

(1) Drugs for RAD9A Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with RAD9A: view

Transcripts for RAD9A Gene

Unigene Clusters for RAD9A Gene

RAD9 homolog A (S. pombe):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RAD9A Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10
SP1:
SP2: -
SP3:
SP4:

Relevant External Links for RAD9A Gene

GeneLoc Exon Structure for
RAD9A
ECgene alternative splicing isoforms for
RAD9A

Expression for RAD9A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RAD9A Gene

Protein differential expression in normal tissues from HIPED for RAD9A Gene

This gene is overexpressed in Peripheral blood mononuclear cells (46.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RAD9A Gene



Protein tissue co-expression partners for RAD9A Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RAD9A Gene:

RAD9A

SOURCE GeneReport for Unigene cluster for RAD9A Gene:

Hs.655354

Evidence on tissue expression from TISSUES for RAD9A Gene

  • Liver(4.2)
genes like me logo Genes that share expression patterns with RAD9A: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RAD9A Gene

Orthologs for RAD9A Gene

This gene was present in the common ancestor of animals.

Orthologs for RAD9A Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RAD9A 34 35
  • 90.86 (n)
dog
(Canis familiaris)
Mammalia RAD9A 34 35
  • 87.44 (n)
mouse
(Mus musculus)
Mammalia Rad9a 34 16 35
  • 84.49 (n)
rat
(Rattus norvegicus)
Mammalia Rad9a 34
  • 84.4 (n)
oppossum
(Monodelphis domestica)
Mammalia RAD9A 35
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RAD9A 35
  • 57 (a)
OneToOne
chicken
(Gallus gallus)
Aves RAD9A 34
  • 66.3 (n)
RAD9 35
  • 55 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RAD9A 35
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rad9a 34
  • 58.06 (n)
African clawed frog
(Xenopus laevis)
Amphibia Rad9 34
zebrafish
(Danio rerio)
Actinopterygii rad9a 35
  • 50 (a)
OneToOne
zgc56197 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.520 34
fruit fly
(Drosophila melanogaster)
Insecta Rad9 34 35
  • 47.62 (n)
worm
(Caenorhabditis elegans)
Secernentea hpr-9 35
  • 14 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 28 (a)
OneToMany
Species where no ortholog for RAD9A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chimpanzee (Pan troglodytes)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RAD9A Gene

ENSEMBL:
Gene Tree for RAD9A (if available)
TreeFam:
Gene Tree for RAD9A (if available)

Paralogs for RAD9A Gene

Paralogs for RAD9A Gene

(1) SIMAP similar genes for RAD9A Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with RAD9A: view

Variants for RAD9A Gene

Sequence variations from dbSNP and Humsavar for RAD9A Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000263849 -- 67,392,430(+) GGTGA(C/T)GTGCA intron-variant, nc-transcript-variant, upstream-variant-2KB, utr-variant-5-prime
rs1000361449 -- 67,391,405(+) CACCG(-/T)TTCTA nc-transcript-variant, upstream-variant-2KB
rs1000420135 -- 67,397,913(+) TAGTA(A/G)GTGCT nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime
rs1001059730 -- 67,396,963(+) AGGCC(A/C)CTACC intron-variant
rs1001347598 -- 67,397,088(+) TGGTC(A/G)GGGGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RAD9A Gene

Variant ID Type Subtype PubMed ID
dgv1977n54 CNV loss 21841781
dgv52n111 CNV deletion 26073780
esv1010387 CNV loss 20482838
nsv468603 CNV loss 19166990
nsv516453 CNV loss 19592680
nsv555253 CNV loss 21841781

Variation tolerance for RAD9A Gene

Residual Variation Intolerance Score: 69.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.58; 44.74% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RAD9A Gene

Human Gene Mutation Database (HGMD)
RAD9A
SNPedia medical, phenotypic, and genealogical associations of SNPs for
RAD9A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RAD9A Gene

Disorders for RAD9A Gene

MalaCards: The human disease database

(1) MalaCards diseases for RAD9A Gene - From: GeneCards

Disorder Aliases PubMed IDs
alpha-thalassemia/mental retardation syndrome
  • mental retardation, x-linked
- elite association - COSMIC cancer census association via MalaCards
Search RAD9A in MalaCards View complete list of genes associated with diseases

Relevant External Links for RAD9A

Genetic Association Database (GAD)
RAD9A
Human Genome Epidemiology (HuGE) Navigator
RAD9A
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RAD9A
genes like me logo Genes that share disorders with RAD9A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RAD9A Gene

Publications for RAD9A Gene

  1. Interaction and colocalization of Rad9/Rad1/Hus1 checkpoint complex with replication protein A in human cells. (PMID: 15897895) Wu X. … Zou Y. (Oncogene 2005) 3 4 22 64
  2. Protein kinase Cdelta is responsible for constitutive and DNA damage- induced phosphorylation of Rad9. (PMID: 12628935) Yoshida K. … Kufe D. (EMBO J. 2003) 3 4 22 64
  3. Phosphorylation of human Rad9 is required for genotoxin-activated checkpoint signaling. (PMID: 12709442) Roos-Mattjus P. … Karnitz L.M. (J. Biol. Chem. 2003) 3 4 22 64
  4. Expression of mammalian paralogues of HRAD9 and Mrad9 checkpoint control genes in normal and cancerous testicular tissue. (PMID: 14500360) Hopkins K.M. … Lieberman H.B. (Cancer Res. 2003) 3 4 22 64
  5. c-Abl tyrosine kinase regulates the human Rad9 checkpoint protein in response to DNA damage. (PMID: 11971963) Yoshida K. … Kufe D. (Mol. Cell. Biol. 2002) 3 4 22 64

Products for RAD9A Gene

Sources for RAD9A Gene

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