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LRATD2 LRAT domain containing 2 [ Homo sapiens (human) ]

Gene ID: 157638, updated on 27-Nov-2024

Summary

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Official Symbol
LRATD2provided by HGNC
Official Full Name
LRAT domain containing 2provided by HGNC
Primary source
HGNC:HGNC:24166
See related
Ensembl:ENSG00000168672 MIM:609483; AllianceGenome:HGNC:24166
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NSE2; FAM84B; BCMP101
Summary
Located in cytoplasm and plasma membrane. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in kidney (RPKM 18.2), salivary gland (RPKM 11.2) and 25 other tissues See more
Orthologs
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Genomic context

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See LRATD2 in Genome Data Viewer
Location:
8q24.21
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (126552443..126558478, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (127679604..127685649, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (127564688..127570723, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375750 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:127534858-127535674 Neighboring gene RNA, U6 small nuclear 869, pseudogene Neighboring gene MPRA-validated peak7170 silencer Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:127559131-127559886 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:127564099-127564608 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27929 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19521 Neighboring gene uncharacterized LOC105375751 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:127570125-127570961 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:127591655-127592462 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:127592463-127593270 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:127593271-127594077 Neighboring gene zinc finger protein 724-like Neighboring gene Sharpr-MPRA regulatory region 547 Neighboring gene RNA, U11 small nuclear 4, pseudogene

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. FAM84B promotes the proliferation of glioma cells through the cell cycle pathways. Ren D, et al. World J Surg Oncol, 2022 Nov 23. PMID 36419094, Free PMC Article
  2. Upregulation of FAM84B during prostate cancer progression. Wong N, et al. Oncotarget, 2017 Mar 21. PMID 28186973, Free PMC Article
  3. Circulating mRNA Profiling in Esophageal Squamous Cell Carcinoma Identifies FAM84B As A Biomarker In Predicting Pathological Response to Neoadjuvant Chemoradiation. Hsu FM, et al. Sci Rep, 2015 May 18. PMID 25980316, Free PMC Article
  4. Long non-coding RNA FAM84B-AS promotes resistance of gastric cancer to platinum drugs through inhibition of FAM84B expression. Zhang Y, et al. Biochem Biophys Res Commun, 2019 Feb 12. PMID 30638658
  5. The Oncogenic Potential of the Centromeric Border Protein FAM84B of the 8q24.21 Gene Desert. Gu Y, et al. Genes (Basel), 2020 Mar 15. PMID 32183428, Free PMC Article

See all (40) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. FAM84B promotes breast cancer tumorigenesis through activation of the NF-kappaB and death receptor signaling pathways.
    Title: FAM84B promotes breast cancer tumorigenesis through activation of the NF-κB and death receptor signaling pathways.
  2. FAM84B promotes the proliferation of glioma cells through the cell cycle pathways.
    Title: FAM84B promotes the proliferation of glioma cells through the cell cycle pathways.
  3. FAM84B acts as a tumor promoter in human glioma via affecting the Akt/GSK-3beta/beta-catenin pathway.
    Title: FAM84B acts as a tumor promoter in human glioma via affecting the Akt/GSK-3β/β-catenin pathway.
  4. Identification of Hub Genes in Gastric Cancer with High Heterogeneity Based on Weighted Gene Co-Expression Network.
    Title: Identification of Hub Genes in Gastric Cancer with High Heterogeneity Based on Weighted Gene Co-Expression Network.
  5. FAM84B, amplified in pancreatic ductal adenocarcinoma, promotes tumorigenesis through the Wnt/beta-catenin pathway.
    Title: FAM84B, amplified in pancreatic ductal adenocarcinoma, promotes tumorigenesis through the Wnt/β-catenin pathway.
  6. The Oncogenic Potential of the Centromeric Border Protein FAM84B of the 8q24.21 Gene Desert.
    Title: The Oncogenic Potential of the Centromeric Border Protein FAM84B of the 8q24.21 Gene Desert.
  7. non-coding RNA (lncRNA) FAM84B-AS promotes resistance of Gastric Cancer to platinum drugs through inhibition of FAM84B expression.
    Title: Long non-coding RNA FAM84B-AS promotes resistance of gastric cancer to platinum drugs through inhibition of FAM84B expression.
  8. High FAM84B expression is associated with prostate cancer progression.
    Title: Upregulation of FAM84B during prostate cancer progression.
  9. Data suggest that FAM84B protein and the NOTCH pathway are involved in the progression of esophageal squamous cell carcinoma (ESCC) and may be potential diagnostic targets for ESCC susceptibility.
    Title: Genomic analyses reveal FAM84B and the NOTCH pathway are associated with the progression of esophageal squamous cell carcinoma.
  10. We demonstrated the decreased of circulating FAM84B mRNA and protein after neoadjuvant CRT may predict pCR, and FAM84B protein is overexpressed in ESCC.
    Title: Circulating mRNA Profiling in Esophageal Squamous Cell Carcinoma Identifies FAM84B As A Biomarker In Predicting Pathological Response to Neoadjuvant Chemoradiation.
Submit: New GeneRIF Correction See all GeneRIFs (11)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Insights into the genetic architecture of early stage age-related macular degeneration: a genome-wide association study meta-analysis.
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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
protein LRATD2
Names
breast cancer membrane protein 101
breast cancer membrane-associated protein 101
family with sequence similarity 84 member B
neurological/sensory 2
protein FAM84B

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.

mRNA and Protein(s)

  1. NM_174911.5 → NP_777571.1  protein LRATD2

    See identical proteins and their annotated locations for NP_777571.1

    Status: VALIDATED

    Source sequence(s)
    AC084116, AK074285
    Consensus CDS
    CCDS6358.1
    UniProtKB/Swiss-Prot
    Q96KN1
    UniProtKB/TrEMBL
    A8K9V9
    Related
    ENSP00000302578.3, ENST00000304916.4
    Conserved Domains (1) summary
    cl21534
    Location:130 → 212
    NLPC_P60; NlpC/P60 family

RNA

  1. NR_156466.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC084116, BE221581, BE326721, CB985735, CX788171

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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    126552443..126558478 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017013107.3 → XP_016868596.1  protein LRATD2 isoform X1

    UniProtKB/Swiss-Prot
    Q96KN1
    UniProtKB/TrEMBL
    A8K9V9
    Conserved Domains (1) summary
    cl21534
    Location:130 → 212
    NLPC_P60; NlpC/P60 family

  2. XM_017013108.3 → XP_016868597.1  protein LRATD2 isoform X2

    UniProtKB/TrEMBL
    A8K9V9
    Conserved Domains (1) summary
    cl21534
    Location:112 → 194
    NLPC_P60; NlpC/P60 family

RNA

  1. XR_007060705.1 RNA Sequence

  2. XR_007060704.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    127679604..127685649 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054359813.1 → XP_054215788.1  protein LRATD2 isoform X2

RNA

  1. XR_008487812.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96KN1.1 GenPept UniProtKB/Swiss-Prot:Q96KN1

Gene LinkOut

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