This gene produces a long non-protein coding RNA that is involved in the regulation of gene expression during tumor progression. This transcript can promote cell proliferation in gastric cancer through interaction with enhancer of zeste 2 and other epigenetic suppressors of gene expression, thereby downregulating target genes including Kruppel like factors 2 and 4. This transcr... See more...

Aliases for LINC00673 Gene

Subcategory (RNA class) for LINC00673 Gene

lncRNA

Number of RNA Genes sources:

4 / 17

Aliases for LINC00673 Gene

  • Long Intergenic Non-Protein Coding RNA 673 2 3
  • Human Islet Long Non Coding RNA 75 2 3
  • SRA-Like Non-Coding RNA 2 3
  • HI-LNC75 2 3
  • ERRLR01 2 3
  • SLNCR1 2 3
  • Long Intergenic Non-Protein Coding RNA 511 5
  • NONHSAG022655.2 91
  • Lnc-SLC39A11-1 165
  • HSALNG0118547 164
  • HSALNG0118552 164
  • LINC00511 5
  • LINC00673 2
  • HILNC75 3
  • LUCAIR1 3
  • SLNCR 3

External Ids for LINC00673 Gene

Previous GeneCards Identifiers for LINC00673 Gene

  • GC17M070382
  • GC17M072403

Summaries for LINC00673 Gene

Entrez Gene Summary for LINC00673 Gene

  • This gene produces a long non-protein coding RNA that is involved in the regulation of gene expression during tumor progression. This transcript can promote cell proliferation in gastric cancer through interaction with enhancer of zeste 2 and other epigenetic suppressors of gene expression, thereby downregulating target genes including Kruppel like factors 2 and 4. This transcript may also act as a tumor suppressor by promoting interaction between protein tyrosine phosphatase, non-receptor type 11 (Ptpn11) and ubiquitin ligase, resulting in degradation of Ptpn11 and lowered oncogenic signalling. Naturally-occurring variation at this locus results in the formation of a binding site for miR-1231, which negatively regulates activity of this transcript. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2017]

GeneCards Summary for LINC00673 Gene

LINC00673 (Long Intergenic Non-Protein Coding RNA 673) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINC00673 include Tongue Squamous Cell Carcinoma and Pancreatic Ductal Adenocarcinoma.

Additional gene information for LINC00673 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 LINC00673 Gene

Genomics for LINC00673 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC00673 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00673 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC00673 Gene

Genomic Locations for LINC00673 Gene
chr17:72,290,091-72,640,472
(GRCh38/hg38)
Size:
350,382 bases
Orientation:
Minus strand
chr17:70,399,463-70,588,943
(GRCh37/hg19)
Size:
189,481 bases
Orientation:
Minus strand

Genomic View for LINC00673 Gene

Genes around LINC00673 on UCSC Golden Path with GeneCards custom track
LINC00673 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LINC00673 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00673 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00673 Gene

Proteins for LINC00673 Gene

Post-translational modifications for LINC00673 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00673 Gene

Domains & Families for LINC00673 Gene

Gene Families for LINC00673 Gene

genes like me logo Genes that share domains with LINC00673: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00673 Gene

Function for LINC00673 Gene

Phenotypes From GWAS Catalog for LINC00673 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 LINC00673 Gene

Localization for LINC00673 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 LINC00673 gene
Compartment Confidence
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
nucleus 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 LINC00673 Gene

Pathways & Interactions for LINC00673 Gene

PathCards logo

SuperPathways for LINC00673 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00673 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00673 Gene

Drugs & Compounds for LINC00673 Gene

No Compound Related Data Available

Transcripts for LINC00673 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC00673 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS0000197E47_9606 lncRNA 1716 4

Ensembl: ENST00000453722 (view in UCSC) ,

LncBook: HSALNT0244890,

LNCipedia: lnc-SLC39A11-1:4, lnc-SLC39A11-1:42,

NONCODE: NONHSAT055684.2,

URS000059A4CF_9606 lncRNA 561 4

Ensembl: ENST00000580500 (view in UCSC) ,

LncBook: HSALNT0244904,

LNCipedia: lnc-SLC39A11-1:14,

NONCODE: NONHSAT055692.2,

URS000075D66E_9606 lncRNA 2257 3

HGNC: 44354,

RefSeq: NR_036488,

ENA: KR778895.1:1..2275:ncRNA,

URS0000A10847_9606 lncRNA 2160 3

RefSeq: NR_152515,

LNCipedia: lnc-SLC39A11-1:44,

ENA: KR778896.1:1..2160:ncRNA,

URS000044BC52_9606 lncRNA 475 3

Ensembl: ENST00000580948 (view in UCSC) ,

LNCipedia: lnc-SLC39A11-1:21,

NONCODE: NONHSAT055694.2,

LINC00673 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC00673 Gene

9 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00673 Gene

No ASD Table

Relevant External Links for LINC00673 Gene

GeneLoc Exon Structure for
LINC00673

Expression for LINC00673 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00673

SOURCE GeneReport for Unigene cluster for LINC00673 Gene:

Hs.157726
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , 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 LINC00673 Gene

Orthologs for LINC00673 Gene

Evolution for LINC00673 Gene

ENSEMBL:
Gene Tree for LINC00673 (if available)
TreeFam:
Gene Tree for LINC00673 (if available)

No data available for Orthologs for LINC00673 Gene

Paralogs for LINC00673 Gene

No data available for Paralogs for LINC00673 Gene

Variants for LINC00673 Gene

Additional dbSNP identifiers (rs#s) for LINC00673 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC00673 Gene

Variant ID Type Subtype PubMed ID
dgv186e215 CNV deletion 23714750
esv24730 CNV loss 19812545
esv2665991 CNV deletion 23128226
esv2669395 CNV deletion 23128226
esv2676038 CNV deletion 23128226
esv2716183 CNV deletion 23290073
esv2716184 CNV deletion 23290073
esv2716186 CNV deletion 23290073
esv3336594 CNV duplication 20981092
esv3446195 CNV duplication 20981092
esv3554745 CNV deletion 23714750
esv3641198 CNV loss 21293372
esv3641199 CNV loss 21293372
nsv527550 CNV loss 19592680
nsv833533 CNV gain 17160897

Additional Variant Information for LINC00673 Gene

Human Gene Mutation Database (HGMD)
LINC00673
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00673

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 LINC00673 Gene

Disorders for LINC00673 Gene

MalaCards: The human disease database

(7) MalaCards diseases for LINC00673 Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
tongue squamous cell carcinoma
  • squamous cell carcinoma of tongue
pancreatic ductal adenocarcinoma
  • ductal adenocarcinoma of the pancreas
pancreatic cancer
  • pancreatic carcinoma
melanoma
  • malignant melanoma
gastric cancer
  • gastric cancer, somatic
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC00673

genes like me logo Genes that share disorders with LINC00673: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC00673 Gene

Publications for LINC00673 Gene

  1. The lncRNA SLNCR1 Mediates Melanoma Invasion through a Conserved SRA1-like Region. (PMID: 27210747) Schmidt K … Novina CD (Cell reports 2016) 2 3
  2. Pancreatic cancer risk variant in LINC00673 creates a miR-1231 binding site and interferes with PTPN11 degradation. (PMID: 27213290) Zheng J … Lin D (Nature genetics 2016) 2 3
  3. 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
  4. Long non‑coding RNA SLNCR1 regulates non‑small cell lung cancer migration, invasion and stemness through interactions with secretory phospholipase A2. (PMID: 31524254) Xu W … Chen L (Molecular medicine reports 2019) 3
  5. LINC00673 is activated by YY1 and promotes the proliferation of breast cancer cells via the miR-515-5p/MARK4/Hippo signaling pathway. (PMID: 31623640) Qiao K … Pang D (Journal of experimental & clinical cancer research : CR 2019) 3

Products for LINC00673 Gene

Sources for LINC00673 Gene