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Aliases for RCL1 Gene

Aliases for RCL1 Gene

  • RNA Terminal Phosphate Cyclase-Like 1 2 3
  • RPCL1 3 4 6
  • RNAC 3 4 6
  • RNA 3-Terminal Phosphate Cyclase-Like Protein 3
  • RNA Cyclase Homolog 3
  • RPC2 4
  • RTC2 4

External Ids for RCL1 Gene

Summaries for RCL1 Gene

GeneCards Summary for RCL1 Gene

RCL1 (RNA Terminal Phosphate Cyclase-Like 1) is a Protein Coding gene. Among its related pathways are Ribosome biogenesis in eukaryotes and Transcription of tRNA. GO annotations related to this gene include RNA-3-phosphate cyclase activity. An important paralog of this gene is RTCA.

UniProtKB/Swiss-Prot for RCL1 Gene

  • Does not have cyclase activity. Plays a role in 40S-ribosomal-subunit biogenesis in the early pre-rRNA processing steps at sites A0, A1 and A2 that are required for proper maturation of the 18S RNA (By similarity).

Gene Wiki entry for RCL1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RCL1 Gene

Genomics for RCL1 Gene

Regulatory Elements for RCL1 Gene

Epigenetics Products

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

Genomic Location for RCL1 Gene

Start:
4,792,834 bp from pter
End:
4,885,917 bp from pter
Size:
93,084 bases
Orientation:
Plus strand

Genomic View for RCL1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RCL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RCL1 Gene

Proteins for RCL1 Gene

  • Protein details for RCL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y2P8-RCL1_HUMAN
    Recommended name:
    RNA 3-terminal phosphate cyclase-like protein
    Protein Accession:
    Q9Y2P8
    Secondary Accessions:
    • D3DRI2
    • Q5VYW9
    • Q5VZU1
    • Q9H9D0
    • Q9NY00
    • Q9P044

    Protein attributes for RCL1 Gene

    Size:
    373 amino acids
    Molecular mass:
    40843 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAD32456.1; Type=Frameshift; Positions=13, 58; Evidence={ECO:0000305};

    Alternative splice isoforms for RCL1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RCL1 Gene

Proteomics data for RCL1 Gene at MOPED

Post-translational modifications for RCL1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RCL1 Gene

Domains for RCL1 Gene

Suggested Antigen Peptide Sequences for RCL1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y2P8

UniProtKB/Swiss-Prot:

RCL1_HUMAN :
  • Q9Y2P8
Family:
  • Belongs to the RNA 3-terminal cyclase family. Type 2 subfamily.
genes like me logo Genes that share domains with RCL1: view

No data available for Gene Families for RCL1 Gene

Function for RCL1 Gene

Molecular function for RCL1 Gene

UniProtKB/Swiss-Prot Function: Does not have cyclase activity. Plays a role in 40S-ribosomal-subunit biogenesis in the early pre-rRNA processing steps at sites A0, A1 and A2 that are required for proper maturation of the 18S RNA (By similarity).

Gene Ontology (GO) - Molecular Function for RCL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IBA --
GO:0003824 catalytic activity --
GO:0003963 NOT RNA-3-phosphate cyclase activity IBA --
GO:0004521 endoribonuclease activity IBA --
genes like me logo Genes that share ontologies with RCL1: view

Phenotypes for RCL1 Gene

genes like me logo Genes that share phenotypes with RCL1: view

Animal Model Products

CRISPR Products

miRNA for RCL1 Gene

miRTarBase miRNAs that target RCL1

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for RCL1 Gene

Localization for RCL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RCL1 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RCL1 Gene COMPARTMENTS Subcellular localization image for RCL1 gene
Compartment Confidence
nucleus 5
mitochondrion 3
cytosol 2

Gene Ontology (GO) - Cellular Components for RCL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus IBA --
genes like me logo Genes that share ontologies with RCL1: view

Pathways for RCL1 Gene

genes like me logo Genes that share pathways with RCL1: view

Pathways by source for RCL1 Gene

Interacting Proteins for RCL1 Gene

Gene Ontology (GO) - Biological Process for RCL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000479 endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA --
GO:0006396 RNA processing IEA --
GO:0008150 biological_process ND --
GO:0042254 ribosome biogenesis --
genes like me logo Genes that share ontologies with RCL1: view

Transcripts for RCL1 Gene

Unigene Clusters for RCL1 Gene

RNA terminal phosphate cyclase-like 1:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RCL1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RCL1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b
SP1: - - - - - - -
SP2: - - - - - - - - -
SP3: - - -
SP4: - - - - - - - - - - - - - -
SP5: - - - - - - - - - - -
SP6: - -
SP7: -
SP8: -
SP9: - -

Relevant External Links for RCL1 Gene

GeneLoc Exon Structure for
RCL1
ECgene alternative splicing isoforms for
RCL1

Expression for RCL1 Gene

mRNA expression in normal human tissues for RCL1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RCL1 Gene

This gene is overexpressed in Liver (5.2) and Pancreas (4.7).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RCL1 Gene

SOURCE GeneReport for Unigene cluster for RCL1 Gene Hs.194121

genes like me logo Genes that share expressions with RCL1: view

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for RCL1 Gene

Orthologs for RCL1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RCL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RCL1 35
  • 99.02 (n)
  • 98.39 (a)
RCL1 36
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RCL1 35
  • 91.33 (n)
  • 97.05 (a)
RCL1 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RCL1 35
  • 91.42 (n)
  • 96.51 (a)
RCL1 36
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rcl1 35
  • 88.56 (n)
  • 97.05 (a)
Rcl1 16
Rcl1 36
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RCL1 36
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RCL1 36
  • 77 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rcl1 35
  • 88.78 (n)
  • 95.67 (a)
chicken
(Gallus gallus)
Aves RCL1 35
  • 77.51 (n)
  • 86.18 (a)
RCL1 36
  • 83 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RCL1 36
  • 85 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia MGC53171 35
tropical clawed frog
(Silurana tropicalis)
Amphibia rcl1 35
  • 68.55 (n)
  • 75 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9982 35
zebrafish
(Danio rerio)
Actinopterygii Dr.6949 35
rcl1 35
  • 68.12 (n)
  • 76.5 (a)
rcl1 36
  • 77 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010498 35
  • 55.83 (n)
  • 56.2 (a)
fruit fly
(Drosophila melanogaster)
Insecta Rtc1 35
  • 56.85 (n)
  • 55.14 (a)
Rtc1 36
  • 53 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea ZK1127.5 35
  • 53.08 (n)
  • 48.37 (a)
ZK1127.5 36
  • 45 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ACL015W 35
  • 46.89 (n)
  • 39.83 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RCL1 35
  • 47.14 (n)
  • 37.43 (a)
RCL1 36
  • 36 (a)
OneToMany
RCL1 38
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C05984g 35
  • 47.54 (n)
  • 39 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G22100 35
  • 50.7 (n)
  • 47.04 (a)
rice
(Oryza sativa)
Liliopsida Os03g0833700 35
  • 51.79 (n)
  • 47.46 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC12G12.06c 35
  • 49.81 (n)
  • 46.59 (a)
Species with no ortholog for RCL1:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RCL1 Gene

ENSEMBL:
Gene Tree for RCL1 (if available)
TreeFam:
Gene Tree for RCL1 (if available)

Paralogs for RCL1 Gene

Paralogs for RCL1 Gene

Pseudogenes.org Pseudogenes for RCL1 Gene

genes like me logo Genes that share paralogs with RCL1: view

Variants for RCL1 Gene

Sequence variations from dbSNP and Humsavar for RCL1 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type MAF
rs10072 -- 4,860,964(-) GAGCT(A/G)TTGTG utr-variant-3-prime
rs15583 -- 4,860,300(+) CCCCA(A/G)TGCCT utr-variant-3-prime
rs159353 -- 4,846,610(+) GGGTC(C/T)CTTGT intron-variant
rs159354 -- 4,842,178(+) CTTCA(A/C)ATCTG intron-variant
rs159432 -- 4,844,459(-) GCAAA(C/T)GGAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RCL1 Gene

Variant ID Type Subtype PubMed ID
nsv892131 CNV Loss 21882294
nsv892132 CNV Gain 21882294
nsv824824 CNV Loss 20364138
esv2738158 CNV Deletion 23290073
nsv6459 CNV Insertion 18451855
nsv892133 CNV Gain 21882294

Relevant External Links for RCL1 Gene

HapMap Linkage Disequilibrium report
RCL1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RCL1 Gene

Disorders for RCL1 Gene

Relevant External Links for RCL1

Genetic Association Database (GAD)
RCL1
Human Genome Epidemiology (HuGE) Navigator
RCL1
genes like me logo Genes that share disorders with RCL1: view

No data available for UniProtKB/Swiss-Prot for RCL1 Gene

Publications for RCL1 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 48
  2. Rcl1p, the yeast protein similar to the RNA 3'-phosphate cyclase, associates with U3 snoRNP and is required for 18S rRNA biogenesis. (PMID: 10790377) Billy E. … Filipowicz W. (EMBO J. 2000) 3 4
  3. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PMID: 11042152) Zhang Q.-H. … Chen Z. (Genome Res. 2000) 3 4
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  5. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray S.J. … Dunham I. (Nature 2004) 3 4

Products for RCL1 Gene

Sources for RCL1 Gene

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