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Aliases for NPTN-IT1 Gene

Subcategory (RNA class) for NPTN-IT1 Gene

lncRNA

Quality Score for this RNA gene is

13

Aliases for NPTN-IT1 Gene

  • NPTN Intronic Transcript 1 2 3 5
  • NPTN Intronic Transcript 1 (Non-Protein Coding) 2 3
  • Long Non-Coding RNA, Low Expression In Tumor 2 3
  • LncRNA-LET 3

External Ids for NPTN-IT1 Gene

ORGUL Members for NPTN-IT1 Gene

Previous GeneCards Identifiers for NPTN-IT1 Gene

  • GC15U901473

Summaries for NPTN-IT1 Gene

GeneCards Summary for NPTN-IT1 Gene

NPTN-IT1 (NPTN Intronic Transcript 1) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with NPTN-IT1 include Gallbladder Cancer and Nasopharyngeal Carcinoma.

Additional gene information for NPTN-IT1 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NPTN-IT1 Gene

Genomics for NPTN-IT1 Gene

GeneHancer (GH) Regulatory Elements for NPTN-IT1 Gene

Promoters and enhancers for NPTN-IT1 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
GH15J073570 Enhancer 0.4 Ensembl 600.7 -1.4 -1358 1 HDGF ZIC2 FOXA1 NPTN-IT1 NPTN GC15M073574
GH15J073564 Enhancer 1 Ensembl ENCODE 0.7 +4.9 4942 1.2 CBFA2T2 MLLT1 GTF2F1 ZSCAN21 PRDM1 SMARCA4 FOSL2 CREB1 ZNF600 ZIC2 NPTN NPTN-IT1 MRPS15P1
GH15J073572 Enhancer 0.7 Ensembl ENCODE 0.4 -5.1 -5114 4.3 ZNF121 POLR2A MNT FOS NPTN-IT1 GC15M073574 NPTN
GH15J073598 Enhancer 0.8 ENCODE 0.3 -32.0 -32024 3.8 ZNF148 CEBPG PPARG PRDM1 MZF1 FOSL2 ZNF600 CEBPA CTBP1 ZNF341 GC15M073574 NPTN ADPGK NPTN-IT1
GH15J073582 Enhancer 0.5 Ensembl ENCODE 0.4 -13.4 -13421 1.3 SREBF1 NPTN-IT1 GC15M073574 NPTN
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NPTN-IT1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for NPTN-IT1 Gene

Genomic Locations for NPTN-IT1 Gene
chr15:73,566,938-73,569,543
(GRCh38/hg38)
Size:
2,606 bases
Orientation:
Minus strand

Genomic View for NPTN-IT1 Gene

Genes around NPTN-IT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NPTN-IT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NPTN-IT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NPTN-IT1 Gene

Proteins for NPTN-IT1 Gene

Post-translational modifications for NPTN-IT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for NPTN-IT1 Gene

Domains & Families for NPTN-IT1 Gene

Gene Families for NPTN-IT1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NPTN-IT1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for NPTN-IT1 Gene

Function for NPTN-IT1 Gene

Phenotypes From GWAS Catalog for NPTN-IT1 Gene

Animal Model Products

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 NPTN-IT1 Gene

Localization for NPTN-IT1 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 NPTN-IT1 Gene

Pathways & Interactions for NPTN-IT1 Gene

PathCards logo

SuperPathways for NPTN-IT1 Gene

No Data Available

Interacting Proteins for NPTN-IT1 Gene

Gene Ontology (GO) - Biological Process for NPTN-IT1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for NPTN-IT1 Gene

Drugs & Compounds for NPTN-IT1 Gene

No Compound Related Data Available

Transcripts for NPTN-IT1 Gene

mRNA/cDNA for NPTN-IT1 Gene

(3) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(2) RNA Central transcripts :

Unigene Clusters for NPTN-IT1 Gene

NPTN intronic transcript 1 (non-protein coding):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for NPTN-IT1 Gene

No ASD Table

Relevant External Links for NPTN-IT1 Gene

GeneLoc Exon Structure for
NPTN-IT1
ECgene alternative splicing isoforms for
NPTN-IT1

Expression for NPTN-IT1 Gene

SOURCE GeneReport for Unigene cluster for NPTN-IT1 Gene:

Hs.656678
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 NPTN-IT1 Gene

Orthologs for NPTN-IT1 Gene

Evolution for NPTN-IT1 Gene

ENSEMBL:
Gene Tree for NPTN-IT1 (if available)
TreeFam:
Gene Tree for NPTN-IT1 (if available)

No data available for Orthologs for NPTN-IT1 Gene

Paralogs for NPTN-IT1 Gene

No data available for Paralogs for NPTN-IT1 Gene

Variants for NPTN-IT1 Gene

Sequence variations from dbSNP and Humsavar for NPTN-IT1 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000369512 -- 73,570,873(-) A/C upstream_transcript_variant
rs1001513618 -- 73,570,706(-) T/A upstream_transcript_variant
rs1001728210 -- 73,567,001(-) GCTTT/ non_coding_transcript_variant
rs1002514791 -- 73,568,736(-) G/A non_coding_transcript_variant
rs1003727857 -- 73,571,366(-) /C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for NPTN-IT1 Gene

Variant ID Type Subtype PubMed ID
nsv1121512 CNV deletion 24896259

Additional Variant Information for NPTN-IT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NPTN-IT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for NPTN-IT1 Gene

Disorders for NPTN-IT1 Gene

MalaCards: The human disease database

(10) MalaCards diseases for NPTN-IT1 Gene - From: LncRNADisease, DISEASES, and GeneCards

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for NPTN-IT1

genes like me logo Genes that share disorders with NPTN-IT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NPTN-IT1 Gene

Publications for NPTN-IT1 Gene

  1. Repression of the long noncoding RNA-LET by histone deacetylase 3 contributes to hypoxia-mediated metastasis. (PMID: 23395002) Yang F … Sun SH (Molecular cell 2013) 2 3 58
  2. EZH2-mediated suppression of lncRNA-LET promotes cell apoptosis and inhibits the proliferation of post-burn skin fibroblasts. (PMID: 29393360) Zheng W … Yu A (International journal of molecular medicine 2018) 3 58
  3. LncRNA-LET inhibits cell viability, migration and EMT while induces apoptosis by up-regulation of TIMP2 in human granulosa-like tumor cell line KGN. (PMID: 29432996) Han Q … Li A (Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie 2018) 3 58
  4. LncRNA DANCR promotes migration and invasion through suppression of lncRNA-LET in gastric cancer cells. (PMID: 28951520) Mao Z … Zai S (Bioscience reports 2017) 3 58
  5. Long Noncoding RNA-LET Suppresses Tumor Growth and EMT in Lung Adenocarcinoma. (PMID: 27896272) Liu B … Chen YJ (BioMed research international 2016) 3 58

Products for NPTN-IT1 Gene

Sources for NPTN-IT1 Gene

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