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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

Regulatory Elements for NPTN-IT1 Gene

Enhancers for NPTN-IT1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH15H073598 1.1 Ensembl ENCODE 0.3 -31.5 -31489 4.9 PKNOX1 FOXA2 ZNF133 SIN3A ZNF2 ZEB1 YY1 ZSCAN5C FOS YY2 NPTN ADPGK GC15M073574 NPTN-IT1
GH15H073564 0.8 ENCODE 0.4 +5.0 5049 0.2 HDAC1 RAD21 TCF12 SCRT2 FOS RUNX3 ZNF362 ZNF592 SMARCA4 MYC NPTN NPTN-IT1 MRPS15P1
GH15H073572 0.5 ENCODE 0.4 -5.1 -5114 4.3 ZNF121 POLR2A MNT FOS FOXP2 NPTN-IT1 GC15M073574
GH15H073584 0.5 ENCODE 0.4 -16.1 -16069 2.5 NFIC ZNF316 MAFG NFE2 EMSY CD276 GC15M073574 NPTN-IT1
GH15H073582 0.4 ENCODE 0.4 -13.4 -13422 1.3 SREBF1 NPTN-IT1 GC15M073574
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers 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 Sequence Context AA Info Type
rs1000369512 -- 73,570,873(+) TCCTT(A/C)AACTT intron-variant, upstream-variant-2KB
rs1001513618 -- 73,570,706(+) CCTAG(A/T)AAATG intron-variant, upstream-variant-2KB
rs1001728210 -- 73,567,001(+) ATGGG(-/GCTTT)TTTTT intron-variant, nc-transcript-variant
rs1002514791 -- 73,568,736(+) CCAAC(A/G)TCCTT intron-variant, nc-transcript-variant
rs1003727857 -- 73,571,365(+) GGGAG(-/C)AAGAC intron-variant, upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
nsv1121512 CNV deletion 24896259

Relevant External Links 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

Relevant External Links for NPTN-IT1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

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 60
  2. Long Noncoding RNA-LET Suppresses Tumor Growth and EMT in Lung Adenocarcinoma. (PMID: 27896272) Liu B … Chen YJ (BioMed research international 2016) 3 60
  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 60
  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 60
  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 60

Products for NPTN-IT1 Gene

Sources for NPTN-IT1 Gene

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