This gene produces a spliced long non-coding RNA that may play a role in maintaining pluripotency and the neural differentiation of embryonic stem cells. Expression of this lncRNA in the caudate nucleus of brains from Huntington's Disease patients has been found to decrease as the disease progresses. It has also been suggested that this transcript may play a role in the progres... See more...

Aliases for TUNAR Gene

Subcategory (RNA class) for TUNAR Gene

lncRNA

Number of RNA Genes sources:

3 / 14

Aliases for TUNAR Gene

  • TCL1 Upstream Neural Differentiation-Associated RNA 2 3 5 13
  • Long Intergenic Non-Protein Coding RNA 617 2 3
  • Tcl1 Upstream Neuron-Associated LincRNA 2 3
  • Human Islet Long Non Coding RNA 78 2 3
  • TCL1A Upstream Neural Differentiation-Associated RNA 2
  • HCG2038094, Isoform CRA_a 13
  • HSALNG0103465 167
  • NONHSAG015808 92
  • Lnc-TUNAR-1 168
  • LINC00617 3
  • HI-LNC78 3
  • TUNAR 2
  • TUNA 3

External Ids for TUNAR Gene

Previous HGNC Symbols for TUNAR Gene

  • LINC00617

Previous GeneCards Identifiers for TUNAR Gene

  • GC14P096345

Summaries for TUNAR Gene

Entrez Gene Summary for TUNAR Gene

  • This gene produces a spliced long non-coding RNA that may play a role in maintaining pluripotency and the neural differentiation of embryonic stem cells. Expression of this lncRNA in the caudate nucleus of brains from Huntington's Disease patients has been found to decrease as the disease progresses. It has also been suggested that this transcript may play a role in the progression of breast cancer. Alternatively spliced transcript variants have been identified. [provided by RefSeq, Aug 2015]

GeneCards Summary for TUNAR Gene

TUNAR (TCL1 Upstream Neural Differentiation-Associated RNA) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with TUNAR include Huntington Disease and Glioma.

Additional gene information for TUNAR Gene

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

Genomics for TUNAR Gene

GeneHancer (GH) Regulatory Elements for TUNAR Gene

Promoters and enhancers for TUNAR 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
GH14J095877 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 506.7 +0.4 443 1.8 EP300 MYC ZIC2 ZBTB10 ZNF423 ZBTB26 HDAC2 ZNF341 CTCF SMC3 TUNAR piR-52475-005
GH14J095715 Promoter/Enhancer 0.5 EPDnew dbSUPER 500.1 -160.8 -160799 0.1 TCL1A TUNAR ENSG00000257275 piR-30350-026
GH14J095880 Enhancer 0.2 Ensembl 6.7 +4.4 4443 1.4 TUNAR piR-52475-005
GH14J095891 Enhancer 0.8 Ensembl ENCODE 0.4 +15.5 15543 0.8 RFX1 CTBP1 ZBTB17 FOS JUN FOSL1 ZFHX2 JUND EP300 ZNF589 TUNAR piR-52475-005
GH14J095895 Enhancer 0.6 ENCODE 0.4 +19.6 19631 0.2 CTCF MYC USF1 POLR2A SMC3 RAD21 YY1 PKNOX1 SIN3A USF2 TUNAR piR-52475-005
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TUNAR on UCSC Golden Path with GeneCards custom track

Genomic Locations for TUNAR Gene

Genomic Locations for TUNAR Gene
chr14:95,876,258-95,925,622
(GRCh38/hg38)
Size:
49,365 bases
Orientation:
Plus strand
chr14:96,342,729-96,391,908
(GRCh37/hg19)
Size:
49,180 bases
Orientation:
Plus strand

Genomic View for TUNAR Gene

Genes around TUNAR on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for TUNAR Gene

Proteins for TUNAR Gene

  • Protein details for TUNAR Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    A0A1B0GTB2-A0A1B0GTB2_HUMAN
    Recommended name:
    HCG2038094, isoform CRA_a
    Protein Accession:
    A0A1B0GTB2
    Secondary Accessions:
    • A0A1B0GUV0

    Protein attributes for TUNAR Gene

    Size:
    48 amino acids
    Molecular mass:
    5360 Da
    Quaternary structure:
    No Data Available

neXtProt entry for TUNAR Gene

Post-translational modifications for TUNAR Gene

No Post-translational modifications

Other Protein References for TUNAR Gene

No data available for DME Specific Peptides for TUNAR Gene

Domains & Families for TUNAR Gene

Gene Families for TUNAR Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for TUNAR Gene

ProtoNet:
genes like me logo Genes that share domains with TUNAR: view

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

Function for TUNAR Gene

Phenotypes From GWAS Catalog for TUNAR Gene

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

Localization for TUNAR 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 TUNAR gene
Compartment Confidence
extracellular 1
cytoskeleton 1
nucleus 1

Gene Ontology (GO) - Cellular Components for TUNAR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TUNAR: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for TUNAR Gene

Pathways & Interactions for TUNAR Gene

PathCards logo

SuperPathways for TUNAR Gene

No Data Available
;

Gene Ontology (GO) - Biological Process for TUNAR Gene

None

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

Drugs & Compounds for TUNAR Gene

No Compound Related Data Available

Transcripts for TUNAR Gene

mRNA/cDNA for TUNAR Gene

9 RNACentral transcripts :
3 REFSEQ mRNAs :
5 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
3 NONCODE transcripts :
2 LncBook transcripts :
2 LNCipedia transcripts :

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

No ASD Table

Relevant External Links for TUNAR Gene

GeneLoc Exon Structure for
TUNAR

Expression for TUNAR Gene

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

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

This gene is overexpressed in Brain - Putamen (basal ganglia) (x12.7), Brain - Caudate (basal ganglia) (x9.6), and Brain - Nucleus accumbens (basal ganglia) (x7.1).

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

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

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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 TUNAR Gene

Orthologs for TUNAR Gene

Evolution for TUNAR Gene

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

No data available for Orthologs for TUNAR Gene

Paralogs for TUNAR Gene

No data available for Paralogs for TUNAR Gene

Variants for TUNAR Gene

Additional dbSNP identifiers (rs#s) for TUNAR Gene

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

Variant ID Type Subtype PubMed ID
esv3581398 CNV loss 25503493
nsv1046191 CNV gain 25217958
nsv1414 CNV insertion 18451855
nsv509547 CNV insertion 20534489

Additional Variant Information for TUNAR Gene

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

SNP Genotyping and Copy Number Assay Products

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 TUNAR Gene

Disorders for TUNAR Gene

MalaCards: The human disease database

(3) MalaCards diseases for TUNAR Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
huntington disease
  • hd
glioma
breast cancer
  • breast cancer, familial
- elite association - COSMIC cancer census association via MalaCards
Search TUNAR in MalaCards View complete list of genes associated with diseases

Additional Disease Information for TUNAR

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

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

Publications for TUNAR Gene

  1. An evolutionarily conserved long noncoding RNA TUNA controls pluripotency and neural lineage commitment. (PMID: 24530304) Lin N … Rana TM (Molecular cell 2014) 2 3 54
  2. Human β cell transcriptome analysis uncovers lncRNAs that are tissue-specific, dynamically regulated, and abnormally expressed in type 2 diabetes. (PMID: 23040067) Morán I … Ferrer J (Cell metabolism 2012) 2 3 54
  3. Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. (PMID: 22196729) Ulitsky I … Bartel DP (Cell 2011) 2 3 54
  4. Long Noncoding RNA TUNAR Represses Growth, Migration, and Invasion of Human Glioma Cells Through Regulating miR-200a and Rac1. (PMID: 29540255) Dai J … Hu Y (Oncology research 2018) 3 54
  5. Long noncoding RNA linc00617 exhibits oncogenic activity in breast cancer. (PMID: 26207516) Li H … Sheng Y (Molecular carcinogenesis 2017) 3 54

Products for TUNAR Gene

Sources for TUNAR Gene