Aliases for LINC00173 Gene

Subcategory (RNA class) for LINC00173 Gene

lncRNA

Number of RNA Genes sources:

4 / 17

Aliases for LINC00173 Gene

  • Long Intergenic Non-Protein Coding RNA 173 2 3 5
  • NCRNA00173 3 4
  • LINC00173 2 5
  • Putative Uncharacterized Protein Encoded By LINC00173 4
  • Non-Protein Coding RNA 173 2
  • Lnc-MAP1LC3B2-28 165
  • NONHSAG012421.2 91
  • NONHSAG012423.2 91
  • NONHSAG012424.2 91
  • HSALNG0094327 164
  • HSALNG0094329 164
  • HSALNG0094332 164
  • FLJ42957 2

External Ids for LINC00173 Gene

Previous HGNC Symbols for LINC00173 Gene

  • NCRNA00173

Previous GeneCards Identifiers for LINC00173 Gene

  • GC12P116973

Summaries for LINC00173 Gene

GeneCards Summary for LINC00173 Gene

LINC00173 (Long Intergenic Non-Protein Coding RNA 173) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINC00173 include Glioma Susceptibility 1 and Hepatocellular Carcinoma.

Additional gene information for LINC00173 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LINC00173 Gene

Genomics for LINC00173 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC00173 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
GH12J116532 Promoter/Enhancer 1.9 Ensembl ENCODE CraniofacialAtlas dbSUPER 616.2 +0.6 609 2.9 PRDM10 ZNF629 IKZF1 KDM1A JUND FOXA1 ZNF143 PKNOX1 POLR2A PATZ1 LINC00173 lnc-C12orf49-9 MAP1LC3B2 MED13L
GH12J116531 Enhancer 0.3 dbSUPER 600.7 -1.6 -1641 0.7 ZNF189 LINC00173 MED13L MAP1LC3B2 LOC105370008
GH12J116536 Enhancer 1.6 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 15 +5.3 5278 4.6 IKZF1 KDM1A FOXA1 LARP7 STAT3 JUND RELA REST SMAD5 ZNF24 lnc-C12orf49-11 MAP1LC3B2 MED13L LINC00173 lnc-MAP1LC3B2-28
GH12J116551 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 15.6 +19.1 19078 3.4 LEF1 JUND PKNOX1 ZNF740 BRD9 DPF2 HDAC1 SOX6 MCM7 EP300 FBXW8 MAP1LC3B2 MED13L LINC00173 lnc-MAP1LC3B2-28 piR-47675-028 lnc-C12orf49-10 SPRING1
GH12J116547 Promoter/Enhancer 1.4 Ensembl ENCODE CraniofacialAtlas dbSUPER 15.1 +14.8 14802 1.7 IKZF1 PKNOX1 EP300 EED MGA POLR2A HMBOX1 CTBP1 RUNX3 ZNF316 MAP1LC3B2 lnc-MAP1LC3B2-28 LINC00173 piR-47675-028 lnc-C12orf49-10 SPRING1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00173 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC00173 Gene

Genomic Locations for LINC00173 Gene
chr12:116,533,422-116,550,740
(GRCh38/hg38)
Size:
17,319 bases
Orientation:
Plus strand
chr12:116,971,227-116,974,323
(GRCh37/hg19)
Size:
3,097 bases
Orientation:
Plus strand

Genomic View for LINC00173 Gene

Genes around LINC00173 on UCSC Golden Path with GeneCards custom track
LINC00173 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LINC00173 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00173 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00173 Gene

Proteins for LINC00173 Gene

  • Protein details for LINC00173 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZV60-YL023_HUMAN
    Recommended name:
    Putative uncharacterized protein encoded by LINC00173
    Protein Accession:
    Q6ZV60

    Protein attributes for LINC00173 Gene

    Size:
    143 amino acids
    Molecular mass:
    16386 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LINC00173 Gene

Post-translational modifications for LINC00173 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00173 Gene

Domains & Families for LINC00173 Gene

Gene Families for LINC00173 Gene

Protein Domains for LINC00173 Gene

ProtoNet:
genes like me logo Genes that share domains with LINC00173: view

No data available for Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00173 Gene

Function for LINC00173 Gene

Phenotypes From GWAS Catalog for LINC00173 Gene

genes like me logo Genes that share phenotypes with LINC00173: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LINC00173 Gene

Localization for LINC00173 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 LINC00173 gene
Compartment Confidence
nucleus 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 LINC00173 Gene

Pathways & Interactions for LINC00173 Gene

PathCards logo

SuperPathways for LINC00173 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00173 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00173 Gene

Drugs & Compounds for LINC00173 Gene

No Compound Related Data Available

Transcripts for LINC00173 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC00173 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075B380_9606 lncRNA 1597 4

HGNC: 33791,

RefSeq: NR_027345,

Ensembl: ENST00000480237 (view in UCSC) ,

LNCipedia: lnc-MAP1LC3B2-28:5,

URS00008B9538_9606 lncRNA 543 4

Ensembl: ENST00000489452 (view in UCSC) ,

LncBook: HSALNT0195574, HSALNT0195575,

LNCipedia: lnc-MAP1LC3B2-28:14,

NONCODE: NONHSAT030946.2,

URS00008BC591_9606 lncRNA 435 4

Ensembl: ENST00000470091 (view in UCSC) ,

LncBook: HSALNT0195570,

LNCipedia: lnc-MAP1LC3B2-28:6,

NONCODE: NONHSAT030944.2,

URS0000EF3D12_9606 lncRNA 950 1

Ensembl: ENST00000659479 (view in UCSC) ,

URS00008B3230_9606 lncRNA 587 3

LncBook: HSALNT0195584,

LNCipedia: lnc-MAP1LC3B2-28:19,

NONCODE: NONHSAT030950.2,

LINC00173 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC00173 Gene

1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00173 Gene

No ASD Table

Relevant External Links for LINC00173 Gene

GeneLoc Exon Structure for
LINC00173

Expression for LINC00173 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00173 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00173 Gene

This gene is overexpressed in Whole Blood (x6.1) and Brain - Cerebellum (x4.9).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00173

SOURCE GeneReport for Unigene cluster for LINC00173 Gene:

Hs.441601
genes like me logo Genes that share expression patterns with LINC00173: view

Primer Products

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 LINC00173 Gene

Orthologs for LINC00173 Gene

Evolution for LINC00173 Gene

ENSEMBL:
Gene Tree for LINC00173 (if available)
TreeFam:
Gene Tree for LINC00173 (if available)

No data available for Orthologs for LINC00173 Gene

Paralogs for LINC00173 Gene

No data available for Paralogs for LINC00173 Gene

Variants for LINC00173 Gene

Additional dbSNP identifiers (rs#s) for LINC00173 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC00173 Gene

Variant ID Type Subtype PubMed ID
esv3630848 CNV gain 21293372
nsv1071057 CNV deletion 25765185

Additional Variant Information for LINC00173 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00173

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 LINC00173 Gene

Disorders for LINC00173 Gene

MalaCards: The human disease database

(2) MalaCards diseases for LINC00173 Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
glioma susceptibility 1
  • glm1
hepatocellular carcinoma
  • hcc
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with LINC00173: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC00173 Gene

Publications for LINC00173 Gene

  1. Identification and characterization of a long non-coding RNA up-regulated during HIV-1 infection. (PMID: 28803142) Postler TS … Ghosh S (Virology 2017) 2 3
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. Linc00173 promotes chemoresistance and progression of small cell lung cancer by sponging miR-218 to regulate Etk expression. (PMID: 31477834) Zeng F … Guo L (Oncogene 2020) 3
  5. Dependence of Human Colorectal Cells Lacking the FBW7 Tumor Suppressor on the Spindle Assembly Checkpoint. (PMID: 26354767) Bailey ML … Hieter P (Genetics 2015) 3

Products for LINC00173 Gene

Sources for LINC00173 Gene