U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

NPHP3-AS1 NPHP3 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 348808, updated on 27-Aug-2024

Summary

Go to the top of the page Help
Official Symbol
NPHP3-AS1provided by HGNC
Official Full Name
NPHP3 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:24129
See related
Ensembl:ENSG00000248724 AllianceGenome:HGNC:24129
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
NCRNA00119
Expression
Low expression observed in reference dataset See more
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
3q22.1
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (132721750..132874211)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (135466253..135618731)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (132440594..132593055)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene NPHP3-ACAD11 readthrough (NMD candidate) Neighboring gene acyl-CoA dehydrogenase family member 11 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:132378955-132379493 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20539 Neighboring gene heat shock protein family A (Hsp70) member pseudogene 19 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:132411873-132412374 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:132412375-132412874 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14744 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14743 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20540 Neighboring gene ubiquitin like modifier activating enzyme 5 Neighboring gene nephrocystin 3 Neighboring gene uncharacterized LOC105374115 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_64751 Neighboring gene NANOG hESC enhancer GRCh37_chr3:132598533-132599069 Neighboring gene MPRA-validated peak4836 silencer Neighboring gene Sharpr-MPRA regulatory region 13907 Neighboring gene Sharpr-MPRA regulatory region 9074 Neighboring gene transmembrane protein 108 Neighboring gene TMEM108 antisense RNA 1 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:132996224-132997423 Neighboring gene uncharacterized LOC101927432

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: HPA RNA-seq normal tissues 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

Go to the top of the pageHelp

Related articles in PubMed

  1. BIRC5, GAJ5, and lncRNA NPHP3-AS1 Are Correlated with the Development of Atrial Fibrillation-Valvular Heart Disease. Zhao Z, et al. Int Heart J, 2021. PMID 33518654
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. BIRC5, GAJ5, and lncRNA NPHP3-AS1 Are Correlated with the Development of Atrial Fibrillation-Valvular Heart Disease.
    Title: BIRC5, GAJ5, and lncRNA NPHP3-AS1 Are Correlated with the Development of Atrial Fibrillation-Valvular Heart Disease.
Submit: New GeneRIF Correction

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

General gene information

Go to the top of the page Help

Markers

Other Names

  • NPHP3 antisense RNA 1 (non-protein coding)

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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.

RNA

  1. NR_002811.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC055732, BC036463, BC039375, CA425131
    Related
    ENST00000504440.1

  2. NR_152743.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BC036463
    Related
    ENST00000489343.5

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    132721750..132874211
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    135466253..135618731
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials