This gene, which encodes a neural small non-messenger RNA, is a member of the family of interspersed repetitive DNA, and its product represents an example of a primate tissue-specific RNA polymerase III transcript. The RNA sequence is divided into three domains: a 5' portion homologous to the Alu Lm, a central adenosine-rich region, and the terminal 43-nt nonrepetitive domain. ... See more...

Aliases for BCYRN1 Gene

Subcategory (RNA class) for BCYRN1 Gene

scRNA

Number of RNA Genes sources:

4 / 14

Aliases for BCYRN1 Gene

  • Brain Cytoplasmic RNA 1 2 3 5
  • Brain Cytoplasmic RNA 1 (Non-Protein Coding) 2 3
  • Long Intergenic Non-Protein Coding RNA 4 2 3
  • Brain Cytoplasmic RNA 200-Alpha 2 3
  • Non-Protein Coding RNA 4 2 3
  • Brain Cytoplasmic RNA 1 (Analog Of Mouse Bc1) 3
  • Brain Cytoplasmic RNA 1, Bc1 Analog (Mouse) 2
  • Brain Cytoplasmic RNA 1, Bc1 Analog 3
  • HSALNG0141597 167
  • NONHSAG027692 92
  • BC200-Alpha 3
  • Lnc-EPCAM-8 168
  • NCRNA00004 3
  • LINC00004 3
  • BC200a 3
  • BCYRN1 2
  • BC200 3

External Ids for BCYRN1 Gene

Previous GeneCards Identifiers for BCYRN1 Gene

  • GC02U990008
  • GC02P047415
  • GC02P047558
  • GC02P047299

Summaries for BCYRN1 Gene

Entrez Gene Summary for BCYRN1 Gene

  • This gene, which encodes a neural small non-messenger RNA, is a member of the family of interspersed repetitive DNA, and its product represents an example of a primate tissue-specific RNA polymerase III transcript. The RNA sequence is divided into three domains: a 5' portion homologous to the Alu Lm, a central adenosine-rich region, and the terminal 43-nt nonrepetitive domain. It is believed that this gene was retropositionally generated and recruited into a function regulating dendritic protein biosynthesis. At least two pseudogenes of this gene have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for BCYRN1 Gene

BCYRN1 (Brain Cytoplasmic RNA 1) is an RNA Gene, and is affiliated with the scRNA class. Diseases associated with BCYRN1 include Aging and Parotid Gland Cancer.

Rfam classification for BCYRN1 Gene

  • Metazoan signal recognition particle RNA

Additional gene information for BCYRN1 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for BCYRN1 Gene

Genomics for BCYRN1 Gene

GeneHancer (GH) Regulatory Elements for BCYRN1 Gene

Promoters and enhancers for BCYRN1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J047327 Enhancer 0.4 Ensembl 500.7 +0.5 543 0.4 FOXP1 FOXA1 ZNF48 PAX5 RUNX3 BCYRN1 piR-38051-151 EPCAM-DT
GH02J047342 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 8 +19.1 19104 5 FOXK2 EP300 CTCF MYC POLR2G USF1 NCOR1 ZIC2 REST KDM6A EPCAM EPCAM-DT MSH2 BCYRN1 lnc-CALM2-11
GH02J047332 Enhancer 1.3 Ensembl ENCODE dbSUPER 6.1 +9.8 9843 7 CTCF PHB2 REST MYC TGIF2 CTBP1 RAD21 JUN SMC3 RBM25 piR-38051-151 piR-38351-247 FBXO11 SOCS5 MIR559 MSH6 EPCAM-DT BCYRN1
GH02J047031 Promoter/Enhancer 1.7 Ensembl ENCODE CraniofacialAtlas dbSUPER 4.2 -291.2 -291222 6.6 EP300 FOXK2 ZNF217 CTCF TCF12 POLR2G NCOR1 JUND FOS TEAD4 CALM2 MSH6 STPG4 EPCAM BCYRN1 ENSG00000233845 lnc-STPG4-5 TTC7A
GH02J047339 Enhancer 1.1 Ensembl ENCODE dbSUPER 5.9 +14.8 14781 2.7 ZNF217 CLOCK CUX1 SKI CTBP1 HCFC1 SIN3A ESRRA ZNF592 FOS RF00017-3184 lnc-CALM2-11 BCYRN1 EPCAM-DT
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around BCYRN1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the BCYRN1 gene promoter:
  • AP-4
  • ATF6
  • HNF-3beta
  • N-Myc
  • Pax-4a
  • STAT5A
  • STAT5B
  • USF-1
  • USF-1:USF-2
  • USF1

Genomic Locations for BCYRN1 Gene

Genomic Locations for BCYRN1 Gene
chr2:47,325,858-47,344,517
(GRCh38/hg38)
Size:
18,660 bases
Orientation:
Plus strand
chr2:47,558,199-47,571,656
(GRCh37/hg19)
Size:
13,458 bases
Orientation:
Plus strand

Genomic View for BCYRN1 Gene

Genes around BCYRN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
BCYRN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for BCYRN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for BCYRN1 Gene

Proteins for BCYRN1 Gene

Post-translational modifications for BCYRN1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for BCYRN1 Gene

Domains & Families for BCYRN1 Gene

Gene Families for BCYRN1 Gene

genes like me logo Genes that share domains with BCYRN1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for BCYRN1 Gene

Function for BCYRN1 Gene

Molecular function for BCYRN1 Gene

GENATLAS Biochemistry:
brain specific,200 nucleotide non-translatable RNA,component of a ribonucleoprotein complex,localized to dendrite-rich neuropil areas of the retina,hippocampus,neocortex

Phenotypes From GWAS Catalog for BCYRN1 Gene

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for BCYRN1 Gene

Localization for BCYRN1 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 BCYRN1 gene
Compartment Confidence
nucleus 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
cytosol 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for BCYRN1 Gene

Pathways & Interactions for BCYRN1 Gene

PathCards logo

SuperPathways for BCYRN1 Gene

No Data Available
;

Gene Ontology (GO) - Biological Process for BCYRN1 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for BCYRN1 Gene

Drugs & Compounds for BCYRN1 Gene

(1) Additional Compounds for BCYRN1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with BCYRN1: view

Transcripts for BCYRN1 Gene

mRNA/cDNA for BCYRN1 Gene

5 RNACentral transcripts :
1 REFSEQ mRNAs :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
2 NONCODE transcripts :
3 ENA transcripts :
1 LncBook transcripts :
4 LNCipedia transcripts :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for BCYRN1 Gene

No ASD Table

Relevant External Links for BCYRN1 Gene

GeneLoc Exon Structure for
BCYRN1

Expression for BCYRN1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for BCYRN1 Gene

mRNA expression in normal human tissues for BCYRN1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for BCYRN1

genes like me logo Genes that share expression patterns with BCYRN1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for BCYRN1 Gene

Orthologs for BCYRN1 Gene

Evolution for BCYRN1 Gene

ENSEMBL:
Gene Tree for BCYRN1 (if available)
TreeFam:
Gene Tree for BCYRN1 (if available)

No data available for Orthologs for BCYRN1 Gene

Paralogs for BCYRN1 Gene

No data available for Paralogs for BCYRN1 Gene

Variants for BCYRN1 Gene

Additional dbSNP identifiers (rs#s) for BCYRN1 Gene

Structural Variations from Database of Genomic Variants (DGV) for BCYRN1 Gene

Variant ID Type Subtype PubMed ID
esv3583781 CNV loss 25503493
nsv1004828 CNV gain 25217958
nsv1009586 CNV gain 25217958
nsv524003 CNV loss 19592680
nsv581756 CNV loss 21841781
nsv999576 CNV gain 25217958

Additional Variant Information for BCYRN1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
BCYRN1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for BCYRN1 Gene

Disorders for BCYRN1 Gene

MalaCards: The human disease database

(17) MalaCards diseases for BCYRN1 Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
aging
parotid gland cancer
  • cancer of parotid gland
tongue cancer
  • malignant neoplasm of anterior 2/3 of tongue
microinvasive gastric cancer
  • early gastric cancer
alzheimer disease
  • ad
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for BCYRN1

genes like me logo Genes that share disorders with BCYRN1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for BCYRN1 Gene

Publications for BCYRN1 Gene

  1. Dendritic BC200 RNA in aging and in Alzheimer's disease. (PMID: 17553964) Mus E … Tiedge H (Proceedings of the National Academy of Sciences of the United States of America 2007) 2 3 23 54
  2. BC200 RNA in invasive and preinvasive breast cancer. (PMID: 15240511) Iacoangeli A … Tiedge H (Carcinogenesis 2004) 2 3 23 54
  3. Assignment of the human BC200 RNA gene (BCYRN1) to chromosome 2p16 by radiation hybrid mapping. (PMID: 9858834) Basile V … Kennedy JL (Cytogenetics and cell genetics 1998) 2 3 23 54
  4. BC200 RNA: a neural RNA polymerase III product encoded by a monomeric Alu element. (PMID: 8265590) Martignetti JA … Brosius J (Proceedings of the National Academy of Sciences of the United States of America 1993) 2 3 23 54
  5. Birth of a gene: locus of neuronal BC200 snmRNA in three prosimians and human BC200 pseudogenes as archives of change in the Anthropoidea lineage. (PMID: 11399078) Kuryshev VY … Brosius J (Journal of molecular biology 2001) 2 3 54

Products for BCYRN1 Gene

Sources for BCYRN1 Gene