LNCNEF lncRNA neighboring enhancer of FOXA2 [Homo sapiens (human)] - Gene

Summary

Official Symbol: LNCNEFprovided by HGNC
Official Full Name: lncRNA neighboring enhancer of FOXA2provided by HGNC
Primary source: HGNC:HGNC:50656
See related: Ensembl:ENSG00000237396 AllianceGenome:HGNC:50656
Gene type: ncRNA
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: LINC01384; lncRNA-NEF
Expression: Low expression observed in reference dataset See more
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Genomic context

Location:: 20p11.21

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	20	NC_000020.11 (22587522..22607517, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	20	NC_060944.1 (22646891..22666887, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	20	NC_000020.10 (22568160..22588155, complement)

Chromosome 20 - NC_000020.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Overexpression of lncRNA-NEF regulates the miR-155/PTEN axis to inhibit adipogenesis and promote osteogenesis.
Title: Overexpression of lncRNA-NEF regulates the miR-155/PTEN axis to inhibit adipogenesis and promote osteogenesis.
lncRNA-NEF participated in intrahepatic cholangiocarcinoma possibly by interacting with RUNX1.
Title: Down-regulation of lncRNA-NEF indicates poor prognosis in intrahepatic cholangiocarcinoma.
Plasma levels LncRNA and miRNA-155 were inversely correlated in triple-negative breast cancer (TNBC) patients.
Title: LncRNA NEF is downregulated in triple negative breast cancer and correlated with poor prognosis.
Serum NEF is a sensitive diagnostic and prognostic marker for gastric carcinoma. NEF siRNA silencing promoted, and overexpression inhibited, gastric carcinoma proliferation. In addition, NEF overexpression promoted, and NEF siRNA silencing inhibited, Runx1 expression. Therefore, it was concluded that lncRNA NEF may participate in the regulation of cancer cell proliferation by regulating Runx1 expression
Title: LncRNA‑NEF is involved the regulation of gastric carcinoma cell proliferation by targeting RUNX1.
LncRNA-NEF regulates epithelial-mesenchymal transition and cancer metastasis via cis-regulating FOXA2.
Title: LncRNA-NEF antagonized epithelial to mesenchymal transition and cancer metastasis via cis-regulating FOXA2 and inactivating Wnt/β-catenin signaling.

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Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A weighted false discovery rate control procedure reveals alleles at FOXA2 that influence fasting glucose levels. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association meta-analysis identifies novel variants associated with fasting plasma glucose in East Asians. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See Variation Viewer (GRCh37.p13)

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General gene information

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Other Names

long intergenic non-protein coding RNA 1384

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.