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NALF1-IT1 NALF1 intronic transcript 1 [ Homo sapiens (human) ]

Gene ID: 100874375, updated on 17-Jun-2024

Summary

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Official Symbol
NALF1-IT1provided by HGNC
Official Full Name
NALF1 intronic transcript 1provided by HGNC
Primary source
HGNC:HGNC:41503
See related
AllianceGenome:HGNC:41503
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
FAM155A-IT1
Expression
Low expression observed in reference dataset See more
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Genomic context

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See NALF1-IT1 in Genome Data Viewer
Location:
13q33.3
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (107787361..107835458, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (107013372..107061494, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (108439709..108487806, complement)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene NALCN channel auxiliary factor 1 Neighboring gene uncharacterized LOC105370353 Neighboring gene uncharacterized LOC112268110 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:108226601-108227264 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_31732 Neighboring gene microRNA 1267 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_31763 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_31780 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_31790 Neighboring gene Sharpr-MPRA regulatory region 14817 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_31927 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:108422800-108423353 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_31956 Neighboring gene heparan sulfate glucosamine 3-O-sulfotransferase 4-like Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:108520312-108520880 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:108527353-108527854 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:108527855-108528354 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32038 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32053 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:108578206-108578800 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32153 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32158 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:108751669-108751831 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:108830918-108831040 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:108846907-108847407 Neighboring gene Sharpr-MPRA regulatory region 13792 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7987 Neighboring gene DNA ligase 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Genome-wide association study of vitamin D levels in children: replication in the Western Australian Pregnancy Cohort (Raine) study. Anderson D, et al. Genes Immun, 2014 Dec. PMID 25208829
  2. A genome-wide search for common SNP x SNP interactions on the risk of venous thrombosis. Greliche N, et al. BMC Med Genet, 2013 Mar 20. PMID 23509962, Free PMC Article
  3. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. Comuzzie AG, et al. PLoS One, 2012. PMID 23251661, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide search for common SNP x SNP interactions on the risk of venous thrombosis.
EBI GWAS Catalog
Genome-wide association study of vitamin D levels in children: replication in the Western Australian Pregnancy Cohort (Raine) study.
EBI GWAS Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Other Names

  • FAM155A intronic transcript 1 (non-protein coding)

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.

RNA

  1. NR_046848.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL136964

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    107787361..107835458 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    107013372..107061494 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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