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Aliases for RQCD1 Gene

Aliases for RQCD1 Gene

  • RCD1 Required For Cell Differentiation1 Homolog (S. Pombe) 2 3
  • CNOT9 3 4 6
  • RCD1 3 4 6
  • CCR4-NOT Transcription Complex Subunit 9 3 4
  • Cancer/Testis Antigen 129 2 3
  • RCD-1 3 4
  • Rcd1 (Required For Cell Differentiation, S.Pombe) Homolog 1 2
  • Cell Differentiation Protein RCD1 Homolog 3
  • Protein Involved In Sexual Development 3
  • CT129 3

External Ids for RQCD1 Gene

Previous GeneCards Identifiers for RQCD1 Gene

  • GC02P217449
  • GC02P218154
  • GC02P219397
  • GC02P219636
  • GC02P219259
  • GC02P219141
  • GC02P219433
  • GC02P211286

Summaries for RQCD1 Gene

Entrez Gene Summary for RQCD1 Gene

  • This gene encodes a member of the highly conserved RCD1 protein family. The encoded protein is a transcriptional cofactor and a core protein of the CCR4-NOT complex. It may be involved in signal transduction as well as retinoic acid-regulated cell differentiation and development. Alternatively spliced transcript variants have been described for this gene. [provided by RefSeq, Oct 2012]

GeneCards Summary for RQCD1 Gene

RQCD1 (RCD1 Required For Cell Differentiation1 Homolog (S. Pombe)) is a Protein Coding gene. Among its related pathways are Gene Expression and Deadenylation-dependent mRNA decay.

UniProtKB/Swiss-Prot for RQCD1 Gene

  • Component of the CCR4-NOT complex which is one of the major cellular mRNA deadenylases and is linked to various cellular processes including bulk mRNA degradation, miRNA-mediated repression, translational repression during translational initiation and general transcription regulation. Additional complex functions may be a consequence of its influence on mRNA expression. Involved in down-regulation of MYB- and JUN-dependent transcription. May play a role in cell differentiation (By similarity). Can bind oligonucleotides, such as poly-G, poly-C or poly-T (in vitro), but the physiological relevance of this is not certain. Does not bind poly-A. Enhances ligand-dependent transcriptional activity of nuclear hormone receptors, including RARA, expect ESR1-mediated transcription that is not only slightly increased, if at all.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RQCD1 Gene

Genomics for RQCD1 Gene

Regulatory Elements for RQCD1 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for RQCD1 Gene

Start:
218,568,580 bp from pter
End:
218,597,080 bp from pter
Size:
28,501 bases
Orientation:
Plus strand

Genomic View for RQCD1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RQCD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RQCD1 Gene

Proteins for RQCD1 Gene

  • Protein details for RQCD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92600-RCD1_HUMAN
    Recommended name:
    Cell differentiation protein RCD1 homolog
    Protein Accession:
    Q92600
    Secondary Accessions:
    • B2RPI0
    • B5MDQ4
    • B7Z1E5
    • Q96IX4

    Protein attributes for RQCD1 Gene

    Size:
    299 amino acids
    Molecular mass:
    33631 Da
    Quaternary structure:
    • Homodimer. Component of the CCR4-NOT complex; distinct complexes seem to exist that differ in the participation of probably mutually exclusive catalytic subunits. Interacts with MYB, ATF2, RARA, RARB, RARG, RXRA, RXRB and RXRG. Identified in a complex with ATF2 bound to target DNA (By similarity). Interacts with NANOS2 (By similarity). Directly interacts with ZNF335.
    SequenceCaution:
    • Sequence=AAH07102.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RQCD1 Gene

    Alternative splice isoforms for RQCD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RQCD1 Gene

Proteomics data for RQCD1 Gene at MOPED

Post-translational modifications for RQCD1 Gene

  • Ubiquitination at Lys222 and Lys281
  • Modification sites at PhosphoSitePlus

Other Protein References for RQCD1 Gene

No data available for DME Specific Peptides for RQCD1 Gene

Domains for RQCD1 Gene

Protein Domains for RQCD1 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q92600

UniProtKB/Swiss-Prot:

RCD1_HUMAN :
  • Q92600
Family:
  • Belongs to the RCD1 family.
genes like me logo Genes that share domains with RQCD1: view

No data available for Gene Families for RQCD1 Gene

Function for RQCD1 Gene

Molecular function for RQCD1 Gene

UniProtKB/Swiss-Prot Function: Component of the CCR4-NOT complex which is one of the major cellular mRNA deadenylases and is linked to various cellular processes including bulk mRNA degradation, miRNA-mediated repression, translational repression during translational initiation and general transcription regulation. Additional complex functions may be a consequence of its influence on mRNA expression. Involved in down-regulation of MYB- and JUN-dependent transcription. May play a role in cell differentiation (By similarity). Can bind oligonucleotides, such as poly-G, poly-C or poly-T (in vitro), but the physiological relevance of this is not certain. Does not bind poly-A. Enhances ligand-dependent transcriptional activity of nuclear hormone receptors, including RARA, expect ESR1-mediated transcription that is not only slightly increased, if at all.

Gene Ontology (GO) - Molecular Function for RQCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005488 binding --
GO:0005515 protein binding IPI 18180299
GO:0019904 protein domain specific binding IPI 24768540
GO:0042803 protein homodimerization activity IDA 24768540
genes like me logo Genes that share ontologies with RQCD1: view
genes like me logo Genes that share phenotypes with RQCD1: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for RQCD1 Gene

Localization for RQCD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RQCD1 Gene

Nucleus. Cytoplasm, P-body. Note=NANOS2 promotes its localization to P-body. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RQCD1 Gene COMPARTMENTS Subcellular localization image for RQCD1 gene
Compartment Confidence
cytosol 4
nucleus 2
extracellular 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for RQCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 cytoplasmic mRNA processing body ISS --
GO:0005634 nucleus IEA --
GO:0005829 cytosol TAS --
GO:0016020 membrane IDA 19946888
GO:0030014 CCR4-NOT complex IDA 19558367
genes like me logo Genes that share ontologies with RQCD1: view

Pathways for RQCD1 Gene

genes like me logo Genes that share pathways with RQCD1: view

Pathways by source for RQCD1 Gene

1 KEGG pathway for RQCD1 Gene

Gene Ontology (GO) - Biological Process for RQCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay TAS --
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006417 regulation of translation IEA --
genes like me logo Genes that share ontologies with RQCD1: view

Transcripts for RQCD1 Gene

Unigene Clusters for RQCD1 Gene

RCD1 required for cell differentiation1 homolog (S. pombe):
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RQCD1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RQCD1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b · 9c
SP1: - -
SP2: -
SP3:
SP4: - -
SP5:

Relevant External Links for RQCD1 Gene

GeneLoc Exon Structure for
RQCD1
ECgene alternative splicing isoforms for
RQCD1

Expression for RQCD1 Gene

mRNA expression in normal human tissues for RQCD1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RQCD1 Gene

SOURCE GeneReport for Unigene cluster for RQCD1 Gene Hs.148767

mRNA Expression by UniProt/SwissProt for RQCD1 Gene

Q92600-RCD1_HUMAN
Tissue specificity: Detected in spleen, thymus, prostate, testis, ovary and intestine.
genes like me logo Genes that share expressions with RQCD1: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for RQCD1 Gene

Orthologs for RQCD1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RQCD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RQCD1 35
  • 99.55 (n)
  • 100 (a)
RQCD1 36
  • 90 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RQCD1 35
  • 94.76 (n)
  • 99.67 (a)
RQCD1 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RQCD1 35
  • 95.21 (n)
  • 99.67 (a)
RQCD1 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rqcd1 35
  • 92.2 (n)
  • 99.67 (a)
Rqcd1 16
Rqcd1 36
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RQCD1 36
  • 100 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RQCD1 36
  • 69 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rqcd1 35
  • 92.98 (n)
  • 99.67 (a)
chicken
(Gallus gallus)
Aves RQCD1 35
  • 83.19 (n)
  • 99.56 (a)
RQCD1 36
  • 94 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RQCD1 36
  • 99 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.13761 35
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC76003 35
rqcd1 35
  • 79.38 (n)
  • 99 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1813 35
zebrafish
(Danio rerio)
Actinopterygii rqcd1 35
  • 75.79 (n)
  • 96.62 (a)
rqcd1 36
  • 96 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012050 35
  • 67.73 (n)
  • 84.7 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG2053 36
  • 37 (a)
OneToMany
Rcd-1 35
  • 66.79 (n)
  • 79.57 (a)
Rcd-1 36
  • 73 (a)
OneToMany
Rcd-1r 36
  • 59 (a)
OneToMany
CG14213 37
  • 78 (a)
CG2053 37
  • 41 (a)
CG9573 37
  • 59 (a)
worm
(Caenorhabditis elegans)
Secernentea ntl-9 35
  • 64.38 (n)
  • 73.29 (a)
ntl-9 36
  • 63 (a)
OneToOne
C26E6.3 37
  • 67 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL194W 35
  • 59.6 (n)
  • 65.8 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CAF40 35
  • 56.26 (n)
  • 61.71 (a)
CAF40 36
  • 45 (a)
OneToOne
CAF40 38
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E13267g 35
  • 55.56 (n)
  • 60.35 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.4960 35
soybean
(Glycine max)
eudicotyledons Gma.4905 35
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G20800 35
  • 59.75 (n)
  • 67.47 (a)
rice
(Oryza sativa)
Liliopsida Os04g0613400 35
  • 64.1 (n)
  • 72.69 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.6222 35
bread mold
(Neurospora crassa)
Ascomycetes NCU07071 35
  • 60.89 (n)
  • 71.22 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rcd1 35
  • 62.08 (n)
  • 70.63 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3625 35
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 91 (a)
OneToMany
CSA.8006 36
  • 86 (a)
OneToMany
Species with no ortholog for RQCD1:
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for RQCD1 Gene

ENSEMBL:
Gene Tree for RQCD1 (if available)
TreeFam:
Gene Tree for RQCD1 (if available)

Paralogs for RQCD1 Gene

genes like me logo Genes that share paralogs with RQCD1: view

No data available for Paralogs for RQCD1 Gene

Variants for RQCD1 Gene

Sequence variations from dbSNP and Humsavar for RQCD1 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs15081 -- 218,595,609(-) CAGGT(A/G)CTAGC utr-variant-3-prime, nc-transcript-variant
rs485698 -- 218,585,646(-) AAAAA(A/T)AAAAA intron-variant
rs486076 -- 218,576,880(-) AAGCG(A/G)TTCTT intron-variant
rs487780 -- 218,585,366(-) TAACT(A/G)GGTGA intron-variant
rs508157 -- 218,570,565(+) GTGGG(A/G)AAAAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RQCD1 Gene

Variant ID Type Subtype PubMed ID
nsv3168 CNV Loss 18451855
nsv875861 CNV Gain 21882294
esv2721478 CNV Deletion 23290073

Relevant External Links for RQCD1 Gene

HapMap Linkage Disequilibrium report
RQCD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RQCD1 Gene

Disorders for RQCD1 Gene

No disorders were found for RQCD1 Gene.

No data available for UniProtKB/Swiss-Prot for RQCD1 Gene

Publications for RQCD1 Gene

  1. Components of the CCR4-NOT complex function as nuclear hormone receptor coactivators via association with the NRC-interacting Factor NIF-1. (PMID: 18180299) Garapaty S. … Samuels H.H. (J. Biol. Chem. 2008) 3 4 23
  2. Novel factor highly conserved among eukaryotes controls sexual development in fission yeast. (PMID: 9447985) Okazaki N. … Okayama H. (Mol. Cell. Biol. 1998) 2 3 4
  3. Mammalian Rcd1 is a novel transcriptional cofactor that mediates retinoic acid-induced cell differentiation. (PMID: 12356739) Hiroi N. … Okayama H. (EMBO J. 2002) 3
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  5. c-Myb protein interacts with Rcd-1, a component of the CCR4 transcription mediator complex. (PMID: 15209511) Haas M. … Wolfes H. (Biochemistry 2004) 3

Products for RQCD1 Gene

Sources for RQCD1 Gene

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