Free for academic non-profit institutions. Other users need a Commercial license

Aliases for NPTN-IT1 Gene

Subcategory (RNA class) for NPTN-IT1 Gene


Quality Score for this RNA gene is


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.

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
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH15I073564 Enhancer 0.8 ENCODE 0.4 +5.0 5048 0.2 HDAC1 RAD21 TCF12 SCRT2 FOS RUNX3 ZNF362 ZNF592 SMARCA4 MYC NPTN NPTN-IT1 MRPS15P1
GH15I073598 Enhancer 1 Ensembl ENCODE 0.3 -31.5 -31488 4.9 PKNOX1 FOXA2 ZNF133 MZF1 SIN3A ZNF2 YY1 ZEB1 ZSCAN5C FOS GC15M073574 NPTN ADPGK NPTN-IT1
GH15I073584 Enhancer 0.5 ENCODE 0.4 -16.1 -16068 2.5 NFIC ZNF316 MAFG NFE2 EMSY CD276 NPTN-IT1 GC15M073574 NPTN
GH15I073572 Enhancer 0.5 ENCODE 0.4 -5.1 -5114 4.3 ZNF121 POLR2A MNT FOS NPTN-IT1 GC15M073574 NPTN
GH15I073582 Enhancer 0.3 ENCODE 0.4 -13.4 -13421 1.3 SREBF1 NPTN-IT1 GC15M073574 NPTN
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

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

Genomic Locations for NPTN-IT1 Gene

Genomic Locations for NPTN-IT1 Gene
2,606 bases
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

Graphical View of Domain Structure for InterPro Entry

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

Function for NPTN-IT1 Gene

Animal Model Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , 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

SuperPathways for NPTN-IT1 Gene

No Data Available

Interacting Proteins for NPTN-IT1 Gene

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


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

(2) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

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
ECgene alternative splicing isoforms for

Expression for NPTN-IT1 Gene

SOURCE GeneReport for Unigene cluster for NPTN-IT1 Gene:

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

Gene Tree for NPTN-IT1 (if available)
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

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

Disorders for NPTN-IT1 Gene

Additional Disease Information for NPTN-IT1

No disorders were found for NPTN-IT1 Gene.

No data available for MalaCards , 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. Long Noncoding RNA-LET Suppresses Tumor Growth and EMT in Lung Adenocarcinoma. (PMID: 27896272) Liu B … Chen YJ (BioMed research international 2016) 3 58
  3. Long non-coding RNA-LET is a positive prognostic factor and exhibits tumor-suppressive activity in gallbladder cancer. (PMID: 25213660) Ma MZ … Quan ZW (Molecular carcinogenesis 2015) 3 58
  4. Long noncoding RNA-LET, which is repressed by EZH2, inhibits cell proliferation and induces apoptosis of nasopharyngeal carcinoma cell. (PMID: 26243049) Sun Q … Yang C (Medical oncology (Northwood, London, England) 2015) 3 58
  5. Long noncoding RNA high expression in hepatocellular carcinoma facilitates tumor growth through enhancer of zeste homolog 2 in humans. (PMID: 21769904) Yang F … Sun SH (Hepatology (Baltimore, Md.) 2011) 3 58

Products for NPTN-IT1 Gene

Sources for NPTN-IT1 Gene

Loading form....