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Aliases for RCCD1 Gene

Aliases for RCCD1 Gene

  • RCC1 Domain Containing 1 2 3 5

External Ids for RCCD1 Gene

Previous GeneCards Identifiers for RCCD1 Gene

  • GC15P089301
  • GC15P091498
  • GC15P067609

Summaries for RCCD1 Gene

GeneCards Summary for RCCD1 Gene

RCCD1 (RCC1 Domain Containing 1) is a Protein Coding gene. An important paralog of this gene is HERC4.

Additional gene information for RCCD1 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RCCD1 Gene

Genomics for RCCD1 Gene

Regulatory Elements for RCCD1 Gene

Enhancers for RCCD1 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
GH15H090991 1.4 Ensembl ENCODE 46.8 +39.0 38980 4 HDGF PKNOX1 ARID4B SIN3A DMAP1 YY1 ZNF143 ZNF207 FOS DEK RCCD1 VPS33B ENSG00000259314 UNC45A VPS33B-DT ENSG00000259212 FES PRC1 ENSG00000200142 GC15M090978
GH15H090953 1.4 ENCODE dbSUPER 35.1 +1.4 1442 4 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 SLC30A9 ZNF766 ZNF143 RCCD1 UNC45A ENSG00000259314 VPS33B ENSG00000258384 PRC1-AS1
GH15H090988 0.8 Ensembl ENCODE 46.7 +33.9 33907 0 HDGF PKNOX1 GATA3 IKZF1 HMBOX1 IKZF2 RCCD1 VPS33B-DT VPS33B PRC1 GC15M090978 ENSG00000200142
GH15H091534 1.5 Ensembl ENCODE dbSUPER 19.8 +581.7 581701 3 PKNOX1 FOXA2 ZFP64 YY1 GATA2 FOS ATF7 ZNF202 ZC3H11A REST ENSG00000259212 ENSG00000259314 RCCD1 UNC45A ENSG00000258954 LOC105370973
GH15H090157 2 FANTOM5 Ensembl ENCODE dbSUPER 14.4 -791.2 -791154 12 HDGF PKNOX1 FOXA2 MLX ARNT ARID4B SIN3A DMAP1 YBX1 ZNF2 CIB1 RCCD1 SEMA4B RPL36AP43 GDPGP1 NGRN ENSG00000259314 UNC45A GABARAPL3 ZNF774
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RCCD1 on UCSC Golden Path with GeneCards custom track

Promoters for RCCD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000081151 405 1001 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 SLC30A9 ZNF766 ZNF143

Genomic Location for RCCD1 Gene

Chromosome:
15
Start:
90,954,695 bp from pter
End:
90,963,543 bp from pter
Size:
8,849 bases
Orientation:
Plus strand

Genomic View for RCCD1 Gene

Genes around RCCD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RCCD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RCCD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RCCD1 Gene

Proteins for RCCD1 Gene

  • Protein details for RCCD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NED2-RCCD1_HUMAN
    Recommended name:
    RCC1 domain-containing protein 1
    Protein Accession:
    A6NED2
    Secondary Accessions:
    • B2RTP9
    • Q29RX6

    Protein attributes for RCCD1 Gene

    Size:
    376 amino acids
    Molecular mass:
    40079 Da
    Quaternary structure:
    No Data Available

neXtProt entry for RCCD1 Gene

Post-translational modifications for RCCD1 Gene

  • Ubiquitination at Lys271, Lys352, isoforms=373, and Lys375
  • Modification sites at PhosphoSitePlus

Other Protein References for RCCD1 Gene

No data available for DME Specific Peptides for RCCD1 Gene

Domains & Families for RCCD1 Gene

Gene Families for RCCD1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for RCCD1 Gene

Suggested Antigen Peptide Sequences for RCCD1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RCCD1: view

No data available for UniProtKB/Swiss-Prot for RCCD1 Gene

Function for RCCD1 Gene

Phenotypes From GWAS Catalog for RCCD1 Gene

genes like me logo Genes that share phenotypes with RCCD1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RCCD1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RCCD1 Gene

Localization for RCCD1 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 RCCD1 gene
Compartment Confidence
plasma membrane 5
cytosol 5
nucleus 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (4)
  • Plasma membrane (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RCCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol IDA --
GO:0005886 plasma membrane IDA --
genes like me logo Genes that share ontologies with RCCD1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for RCCD1 Gene

Pathways & Interactions for RCCD1 Gene

SuperPathways for RCCD1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RCCD1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RCCD1 Gene

Drugs & Compounds for RCCD1 Gene

No Compound Related Data Available

Transcripts for RCCD1 Gene

Unigene Clusters for RCCD1 Gene

RCC1 domain containing 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RCCD1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for RCCD1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9a · 9b · 9c
SP1: -
SP2: -
SP3:
SP4: - -
SP5: -
SP6:

Relevant External Links for RCCD1 Gene

GeneLoc Exon Structure for
RCCD1
ECgene alternative splicing isoforms for
RCCD1

Expression for RCCD1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RCCD1 Gene

Protein differential expression in normal tissues from HIPED for RCCD1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (20.3), Gallbladder (9.8), Pancreas (8.3), and Prostate (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RCCD1 Gene



NURSA nuclear receptor signaling pathways regulating expression of RCCD1 Gene:

RCCD1

SOURCE GeneReport for Unigene cluster for RCCD1 Gene:

Hs.655895

Evidence on tissue expression from TISSUES for RCCD1 Gene

  • Nervous system(4.2)
  • Kidney(2)
genes like me logo Genes that share expression patterns with RCCD1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RCCD1 Gene

Orthologs for RCCD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for RCCD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RCCD1 33 34
  • 99.73 (n)
dog
(Canis familiaris)
Mammalia RCCD1 33 34
  • 85.65 (n)
cow
(Bos Taurus)
Mammalia RCCD1 33 34
  • 84.45 (n)
rat
(Rattus norvegicus)
Mammalia Rccd1 33
  • 79.3 (n)
mouse
(Mus musculus)
Mammalia Rccd1 33 16 34
  • 77.27 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RCCD1 34
  • 45 (a)
OneToOne
chicken
(Gallus gallus)
Aves RCCD1 33 34
  • 65.57 (n)
lizard
(Anolis carolinensis)
Reptilia RCCD1 34
  • 51 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rccd1 33
  • 60.17 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.17685 33
zebrafish
(Danio rerio)
Actinopterygii rccd1 33 34 34
  • 56.75 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG6678 34
  • 31 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea K11D2.1 34
  • 22 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 38 (a)
OneToMany
Species where no ortholog for RCCD1 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)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 RCCD1 Gene

ENSEMBL:
Gene Tree for RCCD1 (if available)
TreeFam:
Gene Tree for RCCD1 (if available)

Paralogs for RCCD1 Gene

Paralogs for RCCD1 Gene

(1) SIMAP similar genes for RCCD1 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with RCCD1: view

Variants for RCCD1 Gene

Sequence variations from dbSNP and Humsavar for RCCD1 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1000016152 -- 90,963,772(+) TTTCA(C/T)TGTGG nc-transcript-variant
rs1000110959 -- 90,953,864(+) GTTCT(A/G)AGTCA upstream-variant-2KB, utr-variant-3-prime
rs1000139699 -- 90,960,563(+) GGTCG(-/ACGGAAAA)ACTTC intron-variant, nc-transcript-variant
rs1000362431 -- 90,962,686(+) AAGAG(C/T)TCATA nc-transcript-variant, utr-variant-3-prime
rs1000380861 -- 90,965,018(+) TGCCT(A/G)TAGTC downstream-variant-500B, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RCCD1 Gene

Variant ID Type Subtype PubMed ID
nsv515661 CNV loss 19592680
nsv833089 CNV loss 17160897
nsv833090 CNV loss 17160897

Variation tolerance for RCCD1 Gene

Residual Variation Intolerance Score: 59.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.09; 69.05% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RCCD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RCCD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RCCD1 Gene

Disorders for RCCD1 Gene

Relevant External Links for RCCD1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RCCD1

No disorders were found for RCCD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RCCD1 Gene

Publications for RCCD1 Gene

  1. Analysis of the DNA sequence and duplication history of human chromosome 15. (PMID: 16572171) Zody MC … Nusbaum C (Nature 2006) 3 4 60
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 60
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  5. RCCD1 depletion attenuates TGF-β-induced EMT and cell migration by stabilizing cytoskeletal microtubules in NSCLC cells. (PMID: 28455245) Wu J … Sun FL (Cancer letters 2017) 3 60

Products for RCCD1 Gene

Sources for RCCD1 Gene

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