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    TUNAR TCL1 upstream neural differentiation-associated RNA [ Homo sapiens (human) ]

    Gene ID: 100507043, updated on 8-Mar-2024

    Summary

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    Official Symbol
    TUNARprovided by HGNC
    Official Full Name
    TCL1 upstream neural differentiation-associated RNAprovided by HGNC
    Primary source
    HGNC:HGNC:44088
    See related
    Ensembl:ENSG00000250366 MIM:615719; AllianceGenome:HGNC:44088
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    BNLN; TUNA; pTUNAR; HI-LNC78; LINC00617
    Summary
    Predicted to act upstream of or within several processes, including positive regulation of chromatin binding activity; positive regulation of mitotic cell cycle; and positive regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm and nucleus. Predicted to be part of ribonucleoprotein complex. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in endometrium (RPKM 5.7), brain (RPKM 3.3) and 3 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    14q32.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (95876448..95925571)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (90107959..90157077)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (96342729..96391908)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984703 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8977 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8978 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8979 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8980 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:96237254-96237437 Neighboring gene uncharacterized LOC105370644 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:96352667-96353446 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr14:96357499-96358698 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96366753-96367253 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:96370580-96371523 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:96373730-96374416 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96375462-96375984 Neighboring gene MPRA-validated peak2244 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:96413280-96414129 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:96414130-96414978 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:96414979-96415828 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:96434413-96434986 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:96441645-96442145 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:96444767-96445284 Neighboring gene NANOG hESC enhancer GRCh37_chr14:96445987-96446488 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:96458745-96459302 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chr14:96459861-96460418 and GRCh37_chr14:96460419-96460976 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96467893-96468394 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6051 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6052 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8981 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96519945-96520444 Neighboring gene chromosome 14 open reading frame 132 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:96526720-96526873 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:96529045-96529222 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8982 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr14:96552361-96553560 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_38841 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96560846-96561346 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96561347-96561847 Neighboring gene uncharacterized LOC124903374 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96563297-96563798

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. The long noncoding RNA TUNAR modulates Wnt signaling and regulates human β-cell proliferation. Zhou AX, et al. Am J Physiol Endocrinol Metab, 2021 Apr 1. PMID 33682459
    2. Long noncoding RNA linc00617 exhibits oncogenic activity in breast cancer. Li H, et al. Mol Carcinog, 2017 Jan. PMID 26207516
    3. A putative long noncoding RNA-encoded micropeptide maintains cellular homeostasis in pancreatic β cells. Li M, et al. Mol Ther Nucleic Acids, 2021 Dec 3. PMID 34513312, Free PMC Article
    4. TUNAR lncRNA Encodes a Microprotein that Regulates Neural Differentiation and Neurite Formation by Modulating Calcium Dynamics. Senís E, et al. Front Cell Dev Biol, 2021. PMID 35036403, Free PMC Article
    5. Human β cell transcriptome analysis uncovers lncRNAs that are tissue-specific, dynamically regulated, and abnormally expressed in type 2 diabetes. Morán I, et al. Cell Metab, 2012 Oct 3. PMID 23040067, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The long noncoding RNA TUNAR modulates Wnt signaling and regulates human beta-cell proliferation.
      Title: The long noncoding RNA TUNAR modulates Wnt signaling and regulates human β-cell proliferation.
    2. This study found the human ortholog of TUNA, linc00617, was upregulated in breast cancer samples.
      Title: Long noncoding RNA linc00617 exhibits oncogenic activity in breast cancer.
    Submit: New GeneRIF Correction

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATPase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ATPase binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in endoplasmic reticulum calcium ion homeostasis IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of neuron differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in neuron projection morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of insulin secretion involved in cellular response to glucose stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of cytosolic calcium ion concentration ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein TUNAR
    Names
    Human Islet Long Non Coding RNA 78
    Tcl1 upstream neuron-associated lincRNA
    beta cell- and neural cell-regulin
    long intergenic non-protein coding RNA 617

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001416131.1 → NP_001403060.1  protein TUNAR isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL133167
      UniProtKB/TrEMBL
      A0A7I2V4K3
      Related
      ENSP00000489624.3, ENST00000503525.3

    2. NM_001416132.1 → NP_001403061.1  protein TUNAR isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL133167
      UniProtKB/Swiss-Prot
      A0A1B0GTB2, A0A1B0GUV0
      Related
      ENSP00000490254.2, ENST00000554321.1

    3. NM_001416133.1 → NP_001403062.1  protein TUNAR isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL133167
      UniProtKB/Swiss-Prot
      A0A1B0GTB2, A0A1B0GUV0
      Related
      ENSP00000498192.1, ENST00000504119.1

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      95876448..95925571
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      90107959..90157077
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NR_038861.1: Suppressed sequence

      Description
      NR_038861.1: This RefSeq was removed because it is now thought that this gene does encode a protein.

    2. NR_132398.1: Suppressed sequence

      Description
      NR_132398.1: This RefSeq was removed because it is now thought that this gene does encode a protein.

    3. NR_132399.1: Suppressed sequence

      Description
      NR_132399.1: This RefSeq was removed because it is now thought that this gene does encode a protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A0A1B0GTB2.2 GenPept UniProtKB/Swiss-Prot:A0A1B0GTB2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases