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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 HERC2.

No data available for Entrez Gene 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
GH15F090991 1.1 ENCODE 64.4 +39.0 38980 4.3 HDGF PKNOX1 MLX CREB3L1 ZFP64 ARID4B SIN3A DMAP1 YY1 ZNF207 RCCD1 ENSG00000259314 ENSG00000259212 VPS33B LOC101926911 UNC45A NIFKP5 ENSG00000270322 FES PRC1
GH15F090958 0.2 ENCODE 51.3 +5.3 5334 2.8 ZNF362 SCRT2 KLF9 ZNF600 RCCD1 UNC45A MAN2A2 LOC101926911 NDUFA3P4 ENSG00000258384 PRC1-AS1
GH15F090987 0.8 Ensembl ENCODE 46.7 +34.0 34006 1.8 SCRT1 HDGF PKNOX1 ZNF362 ZNF664 ZNF316 GATA3 CTBP1 SCRT2 IKZF1 RCCD1 LOC101926911 VPS33B ENSG00000228998 PRC1 ENSG00000200142 GC15M090978
GH15F090953 0.4 ENCODE 35.1 +1.4 1442 4.4 HDGF PKNOX1 CREB3L1 MLX WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 RCCD1 UNC45A ENSG00000258384 PRC1-AS1
GH15F090867 1.2 FANTOM5 ENCODE 20 -83.3 -83335 7.0 HDGF PKNOX1 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ENSG00000259314 FES RCCD1 ENSG00000259212 NIFKP5 ENSG00000270322 ARPIN FURIN IQGAP1 UNC45A
- Elite enhancer/Elite enhancer-gene association Download Table
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
ENSR00000128417 505 1601 HDGF PKNOX1 CREB3L1 MLX WRNIP1 ARID4B SIN3A DMAP1 ZNF2 SLC30A9

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 Lys 271, Lys 352, Lys 373, and Lys 375
  • 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

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

A6NED2

UniProtKB/Swiss-Prot:

RCCD1_HUMAN :
  • Contains 4 RCC1 repeats.
Similarity:
  • Contains 4 RCC1 repeats.
genes like me logo Genes that share domains with RCCD1: view

No data available for Gene Families for RCCD1 Gene

Function for RCCD1 Gene

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

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

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
Jensen Localization Image for RCCD1 Gene COMPARTMENTS Subcellular localization image for RCCD1 gene
Compartment Confidence
plasma membrane 5
cytosol 4
nucleus 3

Gene Ontology (GO) - Cellular Components for RCCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm 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

Transcripts for RCCD1 Gene

Unigene Clusters for RCCD1 Gene

RCC1 domain containing 1:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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 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
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 and mRNA Expression by UniProt/SwissProt 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 34 35
  • 99.73 (n)
dog
(Canis familiaris)
Mammalia RCCD1 34 35
  • 85.65 (n)
cow
(Bos Taurus)
Mammalia RCCD1 34 35
  • 84.45 (n)
rat
(Rattus norvegicus)
Mammalia Rccd1 34
  • 79.3 (n)
mouse
(Mus musculus)
Mammalia Rccd1 34 16 35
  • 77.27 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RCCD1 35
  • 45 (a)
OneToOne
chicken
(Gallus gallus)
Aves RCCD1 34 35
  • 65.57 (n)
lizard
(Anolis carolinensis)
Reptilia RCCD1 35
  • 51 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rccd1 34
  • 60.17 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.17685 34
zebrafish
(Danio rerio)
Actinopterygii rccd1 34 35 35
  • 56.75 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG6678 35
  • 31 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea K11D2.1 35
  • 22 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 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
rs10852140 -- 90,957,066(+) CCCCA(C/T)CCCCG intron-variant
rs1105291 -- 90,959,153(-) CAGAG(A/G)GGGTT intron-variant
rs1105292 -- 90,959,125(-) tccca(A/G)ggccc intron-variant
rs11073963 -- 90,957,030(+) CCCCA(A/G)TTCGA intron-variant
rs111317614 -- 90,961,771(+) CTGAC(-/AT)GTGTA nc-transcript-variant, utr-variant-3-prime

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 M.C. … Nusbaum C. (Nature 2006) 3 4 64
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  3. 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) 2 3 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Human-chromatin-related protein interactions identify a demethylase complex required for chromosome segregation. (PMID: 24981860) Marcon E. … Greenblatt J. (Cell Rep 2014) 3 64

Products for RCCD1 Gene

Sources for RCCD1 Gene

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