Aliases for LRATD2 Gene

Aliases for LRATD2 Gene

  • LRAT Domain Containing 2 2 3 5
  • BCMP101 2 3 4
  • NSE2 2 3 4
  • Breast Cancer Membrane-Associated Protein 101 2 3
  • Family With Sequence Similarity 84 Member B 2 3
  • Breast Cancer Membrane Protein 101 3 4
  • Neurological/Sensory 2 2 3
  • Protein LRATD2 3 4
  • Protein FAM84B 3 4
  • FAM84B 3 4
  • LRAT Domain-Containing 2 4
  • Protein NSE2 4
  • LRATD2 5

External Ids for LRATD2 Gene

Previous HGNC Symbols for LRATD2 Gene

  • FAM84B

Previous GeneCards Identifiers for LRATD2 Gene

  • GC08M127196
  • GC08M127349
  • GC08M127395
  • GC08M127708
  • GC08M127978

Summaries for LRATD2 Gene

GeneCards Summary for LRATD2 Gene

LRATD2 (LRAT Domain Containing 2) is a Protein Coding gene. An important paralog of this gene is LRATD1.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LRATD2 Gene

Genomics for LRATD2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LRATD2 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRATD2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LRATD2

Genomic Locations for LRATD2 Gene

Latest Assembly
chr8:126,552,443-126,558,498
(GRCh38/hg38)
Size:
6,056 bases
Orientation:
Minus strand

Previous Assembly
chr8:127,564,688-127,570,723
(GRCh37/hg19 by Entrez Gene)
Size:
6,036 bases
Orientation:
Minus strand

chr8:127,564,687-127,570,638
(GRCh37/hg19 by Ensembl)
Size:
5,952 bases
Orientation:
Minus strand

Genomic View for LRATD2 Gene

Genes around LRATD2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRATD2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRATD2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRATD2 Gene

Proteins for LRATD2 Gene

  • Protein details for LRATD2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96KN1-LRAT2_HUMAN
    Recommended name:
    Protein LRATD2
    Protein Accession:
    Q96KN1

    Protein attributes for LRATD2 Gene

    Size:
    310 amino acids
    Molecular mass:
    34474 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LRATD2 Gene

Post-translational modifications for LRATD2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LRATD2 Gene

No data available for DME Specific Peptides for LRATD2 Gene

Domains & Families for LRATD2 Gene

Gene Families for LRATD2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for LRATD2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LRATD2 Gene

GenScript: Design optimal peptide antigens:
  • Protein NSE2 (FA84B_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q96KN1

UniProtKB/Swiss-Prot:

LRAT2_HUMAN :
  • Belongs to the LRATD family.
Family:
  • Belongs to the LRATD family.
genes like me logo Genes that share domains with LRATD2: view

Function for LRATD2 Gene

Phenotypes From GWAS Catalog for LRATD2 Gene

Gene Ontology (GO) - Molecular Function for LRATD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 12477722
genes like me logo Genes that share ontologies with LRATD2: view
genes like me logo Genes that share phenotypes with LRATD2: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LRATD2

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRATD2 Gene

Localization for LRATD2 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LRATD2 gene
Compartment Confidence
plasma membrane 4
nucleus 2
cytosol 2
extracellular 1
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for LRATD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 12477722
GO:0005886 plasma membrane IDA 12477722
genes like me logo Genes that share ontologies with LRATD2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for LRATD2 Gene

Pathways & Interactions for LRATD2 Gene

PathCards logo

SuperPathways for LRATD2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRATD2 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRATD2 Gene

Drugs & Compounds for LRATD2 Gene

No Compound Related Data Available

Transcripts for LRATD2 Gene

mRNA/cDNA for LRATD2 Gene

1 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LRATD2

Alternative Splicing Database (ASD) splice patterns (SP) for LRATD2 Gene

No ASD Table

Relevant External Links for LRATD2 Gene

GeneLoc Exon Structure for
LRATD2

Expression for LRATD2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LRATD2

SOURCE GeneReport for Unigene cluster for LRATD2 Gene:

Hs.741352

mRNA Expression by UniProt/SwissProt for LRATD2 Gene:

Q96KN1-LRAT2_HUMAN
Tissue specificity: Expressed in esophageal squamous cell carcinomas.

Evidence on tissue expression from TISSUES for LRATD2 Gene

  • Nervous system(4.4)
  • Kidney(2.3)
genes like me logo Genes that share expression patterns with LRATD2: view

Primer products for research

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRATD2 Gene

Orthologs for LRATD2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRATD2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia FAM84B 30 31
  • 100 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia FAM84B 30 31
  • 93.16 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia FAM84B 30 31
  • 89.74 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Fam84b 30 31
  • 86.88 (n)
OneToOne
Lratd2 17
Rat
(Rattus norvegicus)
Mammalia Fam84b 30
  • 86.13 (n)
Oppossum
(Monodelphis domestica)
Mammalia FAM84B 31
  • 78 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia FAM84B 31
  • 73 (a)
OneToOne
Chicken
(Gallus gallus)
Aves FAM84B 30 31
  • 77.86 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia FAM84B 31
  • 76 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC101733578 30
  • 73.02 (n)
Zebrafish
(Danio rerio)
Actinopterygii fam84b 30 31
  • 67.18 (n)
OneToMany
FAM84B (2 of 2) 31
  • 61 (a)
OneToMany
Species where no ortholog for LRATD2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for LRATD2 Gene

ENSEMBL:
Gene Tree for LRATD2 (if available)
TreeFam:
Gene Tree for LRATD2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LRATD2: view image

Paralogs for LRATD2 Gene

Paralogs for LRATD2 Gene

genes like me logo Genes that share paralogs with LRATD2: view

Variants for LRATD2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LRATD2 Gene

SNP ID Clinical significance and condition Chr 08 pos Variation AA Info Type
rs1554597029 Not Provided: not provided 126,556,997(-) C/CGG
NM_174911.5(LRATD2):c.391_392dup (p.His132fs)
FRAMESHIFT_VARIANT,NON_CODING_TRANSCRIPT

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LRATD2 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for LRATD2 Gene

Variant ID Type Subtype PubMed ID
esv2737545 CNV deletion 23290073
nsv499795 OTHER inversion 21111241
nsv7419 OTHER inversion 18451855

Variation tolerance for LRATD2 Gene

Residual Variation Intolerance Score: 43.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.08; 50.79% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRATD2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRATD2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRATD2 Gene

Disorders for LRATD2 Gene

Additional Disease Information for LRATD2

No disorders were found for LRATD2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRATD2 Gene

Publications for LRATD2 Gene

  1. Circulating mRNA Profiling in Esophageal Squamous Cell Carcinoma Identifies FAM84B As A Biomarker In Predicting Pathological Response to Neoadjuvant Chemoradiation. (PMID: 25980316) Hsu FM … Chuang EY (Scientific reports 2015) 2 3
  2. Negative implication of C-MYC as an amplification target in esophageal cancer. (PMID: 16490593) Huang XP … Liang QW (Cancer genetics and cytogenetics 2006) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  5. The Oncogenic Potential of the Centromeric Border Protein FAM84B of the 8q24.21 Gene Desert. (PMID: 32183428) Gu Y … Tang D (Genes 2020) 3

Products for LRATD2 Gene

Sources for LRATD2 Gene