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Aliases for BCYRN1 Gene

Subcategory (RNA class) for BCYRN1 Gene

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Quality Score for this RNA gene is

13

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
  • BC200-Alpha 3
  • NCRNA00004 3
  • LINC00004 3
  • BC200a 3
  • BC200 3

External Ids for BCYRN1 Gene

ORGUL Members 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 undefined RNA class. Diseases associated with BCYRN1 include Aging and Parotid Gland Cancer.

Additional gene information for BCYRN1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies 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
GH02J047334 Enhancer 1.3 Ensembl ENCODE dbSUPER 656.4 -0.4 -399 1.5 ARNT ARID4B ZNF2 TCF12 ZNF121 ZNF766 ARID2 ATF7 NCOA1 REST BCYRN1 GC02P047335 FBXO11 SOCS5 MIR559 MSH6 LOC101927043 GC02M047306
GH02J047336 Enhancer 1.3 Ensembl ENCODE dbSUPER 650.7 +1.6 1641 1.8 PKNOX1 ATF1 IRF4 TCF12 ZNF766 GATA2 ZNF207 ATF7 RUNX3 NCOA1 BCYRN1 GC02P047335 MIR559 LOC101927043
GH02J047342 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 8.1 +9.6 9647 5 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 SLC30A9 SP5 ZHX2 MXD4 EPCAM LOC101927043 MSH2 BCYRN1
GH02J047339 Enhancer 1 ENCODE dbSUPER 6 +4.9 4916 1.9 PKNOX1 CLOCK NFIB NEUROD1 SIN3A RARA FOS RCOR1 HCFC1 ZNF592 BCYRN1 LOC101927043
GH02J047031 Enhancer 1.4 Ensembl ENCODE dbSUPER 4.2 -300.7 -300679 6.6 HDGF PKNOX1 FOXA2 MLX ZFP64 ARID4B NEUROD1 SIN3A DMAP1 YY1 CALM2 MSH6 STPG4 EPCAM BCYRN1 ENSG00000233845 GC02M046968 TTC7A
- 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:
  • HNF-3beta
  • STAT5A
  • ATF6
  • STAT5B
  • AP-4
  • N-Myc
  • Pax-4a
  • USF-1
  • USF-1:USF-2
  • USF1

Genomic Locations for BCYRN1 Gene

Genomic Locations for BCYRN1 Gene
chr2:47,335,315-47,335,514
(GRCh38/hg38)
Size:
200 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

Graphical View of Domain Structure for InterPro Entry

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

No data available for Protein Domains , Suggested Antigen Peptide Sequences 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

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , 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

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

Pathways & Interactions for BCYRN1 Gene

SuperPathways for BCYRN1 Gene

No Data Available

Interacting Proteins for BCYRN1 Gene

Gene Ontology (GO) - Biological Process for BCYRN1 Gene

None

No data available for Pathways by source 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

(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :
(1) RNA Central transcripts :

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

No ASD Table

Relevant External Links for BCYRN1 Gene

GeneLoc Exon Structure for
BCYRN1
ECgene alternative splicing isoforms for
BCYRN1

Expression for BCYRN1 Gene

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

mRNA expression in normal human tissues for BCYRN1 Gene

NURSA nuclear receptor signaling pathways regulating expression of BCYRN1 Gene:

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

Sequence variations from dbSNP and Humsavar for BCYRN1 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000454767 -- 47,335,675(+) C/T downstream_transcript_variant
rs1001671650 -- 47,334,908(+) C/T upstream_transcript_variant
rs1002410461 -- 47,335,945(+) G/C downstream_transcript_variant
rs1002990868 -- 47,333,929(+) T/C upstream_transcript_variant
rs1003077865 -- 47,333,809(+) G/A upstream_transcript_variant

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 and Variation tolerance for BCYRN1 Gene

Disorders for BCYRN1 Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
aging
parotid gland cancer
  • cancer of parotid gland
microinvasive gastric cancer
  • early gastric cancer
tongue cancer
  • malignant neoplasm of anterior 2/3 of tongue
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 22 58
  2. BC200 RNA in invasive and preinvasive breast cancer. (PMID: 15240511) Iacoangeli A … Tiedge H (Carcinogenesis 2004) 2 3 22 58
  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 22 58
  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 22 58
  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 58

Products for BCYRN1 Gene

Sources for BCYRN1 Gene

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