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Aliases for LARP6 Gene

Aliases for LARP6 Gene

  • La Ribonucleoprotein Domain Family Member 6 2 3 4 5
  • Acheron 3 4
  • La Ribonucleoprotein Domain Family, Member 6 2
  • Death-Associated LA Motif Protein 3
  • La-Related Protein 6 3
  • ACHN 3
  • Achn 4

External Ids for LARP6 Gene

Previous GeneCards Identifiers for LARP6 Gene

  • GC15M068911
  • GC15M071123
  • GC15M047959

Summaries for LARP6 Gene

GeneCards Summary for LARP6 Gene

LARP6 (La Ribonucleoprotein Domain Family Member 6) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is LARP7.

UniProtKB/Swiss-Prot for LARP6 Gene

  • Regulates the coordinated translation of type I collagen alpha-1 and alpha-2 mRNAs, CO1A1 and CO1A2. Stabilizes mRNAs through high-affinity binding of a stem-loop structure in their 5 UTR. This regulation requires VIM and MYH10 filaments, and the helicase DHX9.

Gene Wiki entry for LARP6 Gene

Additional gene information for LARP6 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LARP6 Gene

Genomics for LARP6 Gene

GeneHancer (GH) Regulatory Elements for LARP6 Gene

Promoters and enhancers for LARP6 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH15J070851 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 663.4 +0.9 887 3.5 SIN3A FEZF1 ZNF2 YY1 GLIS2 SP3 YY2 REST ZNF488 ZNF610 LARP6 LRRC49 RPL29P30
GH15J070855 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 16.9 -2.9 -2879 3.5 SIN3A FEZF1 GLIS2 ZNF213 FOS ATF7 KLF13 DEK SP3 RXRA KRT8P9 LARP6 RPL17P39 LRRC49
GH15J070890 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 13.3 -38.1 -38056 2.7 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF213 E2F8 ZNF143 THAP10 LRRC49 RPL17P39 LARP6 TLE3 ENSG00000260037 KRT8P9
GH15J070832 Enhancer 1.3 Ensembl ENCODE dbSUPER 14.7 +20.2 20216 3.5 FOXA2 FEZF1 ZNF2 ZNF48 GLIS2 ELK1 ZNF416 FOS KLF13 RXRA PIR51129 LARP6 LRRC49 ENSG00000260037 RPL29P30 ENSG00000259744
GH15J070865 Enhancer 0.8 dbSUPER 23.2 -11.5 -11487 0.7 ZNF493 ZFP64 MZF1 ZNF155 ZNF23 ZNF213 ZNF138 ZNF202 ZNF680 ZBTB11 RPL17P39 LRRC49 THAP10 LARP6 ENSG00000259744 TLE3 KRT8P9
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LARP6 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LARP6 gene promoter:
  • FOXD3
  • GATA-2
  • AhR
  • AP-2gamma
  • MRF-2
  • AML1a
  • USF1
  • USF-1
  • AP-2alpha
  • AP-2alphaA

Genomic Locations for LARP6 Gene

Genomic Locations for LARP6 Gene
chr15:70,829,130-70,854,265
(GRCh38/hg38)
Size:
25,136 bases
Orientation:
Minus strand
chr15:71,123,863-71,146,498
(GRCh37/hg19)
Size:
22,636 bases
Orientation:
Minus strand

Genomic View for LARP6 Gene

Genes around LARP6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LARP6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LARP6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LARP6 Gene

Proteins for LARP6 Gene

  • Protein details for LARP6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BRS8-LARP6_HUMAN
    Recommended name:
    La-related protein 6
    Protein Accession:
    Q9BRS8
    Secondary Accessions:
    • Q5XKE4
    • Q8N3N2
    • Q9NUR0

    Protein attributes for LARP6 Gene

    Size:
    491 amino acids
    Molecular mass:
    54737 Da
    Quaternary structure:
    • Interacts (via the HTH domain) with VIM/vimentin. Interacts (via C-terminus) with non-muscle myosin MYH10. Interacts (via C-terminus) with DHX9.

    Three dimensional structures from OCA and Proteopedia for LARP6 Gene

    Alternative splice isoforms for LARP6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LARP6 Gene

Post-translational modifications for LARP6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LARP6 Gene

No data available for DME Specific Peptides for LARP6 Gene

Domains & Families for LARP6 Gene

Gene Families for LARP6 Gene

Suggested Antigen Peptide Sequences for LARP6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BRS8

UniProtKB/Swiss-Prot:

LARP6_HUMAN :
  • The RRM domain mediates the association with collagen mRNAs stem-loops.
Domain:
  • The RRM domain mediates the association with collagen mRNAs stem-loops.
genes like me logo Genes that share domains with LARP6: view

Function for LARP6 Gene

Molecular function for LARP6 Gene

UniProtKB/Swiss-Prot Function:
Regulates the coordinated translation of type I collagen alpha-1 and alpha-2 mRNAs, CO1A1 and CO1A2. Stabilizes mRNAs through high-affinity binding of a stem-loop structure in their 5 UTR. This regulation requires VIM and MYH10 filaments, and the helicase DHX9.

Phenotypes From GWAS Catalog for LARP6 Gene

Gene Ontology (GO) - Molecular Function for LARP6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 20603131
GO:0017022 myosin binding IPI 20603131
GO:0035613 RNA stem-loop binding IMP 21746880
GO:0048027 mRNA 5-UTR binding IMP 21746880
genes like me logo Genes that share ontologies with LARP6: view
genes like me logo Genes that share phenotypes with LARP6: view

Animal Model Products

miRNA for LARP6 Gene

miRTarBase miRNAs that target LARP6

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LARP6 Gene

Localization for LARP6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LARP6 Gene

Cytoplasm. Nucleus. Note=Shuttles between the nucleus and the cytoplasm.

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 LARP6 gene
Compartment Confidence
nucleus 5
cytoskeleton 3
cytosol 2
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytokinetic bridge (2)
  • Microtubules (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LARP6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 21746880
GO:0005737 cytoplasm IEA --
GO:0005844 polysome IMP 21746880
GO:1990904 ribonucleoprotein complex IMP 21746880
genes like me logo Genes that share ontologies with LARP6: view

Pathways & Interactions for LARP6 Gene

SuperPathways for LARP6 Gene

No Data Available

Interacting Proteins for LARP6 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000299213%0d%0a9606.ENSP00000217073%0d%0a
Selected Interacting proteins: ENSP00000299213 Q9BRS8-LARP6_HUMAN for LARP6 Gene via STRING IID

Gene Ontology (GO) - Biological Process for LARP6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing IEA --
GO:0006417 regulation of translation IEA --
GO:0032967 positive regulation of collagen biosynthetic process IMP 21746880
GO:0045727 positive regulation of translation IMP 21746880
GO:1902416 positive regulation of mRNA binding IMP 21746880
genes like me logo Genes that share ontologies with LARP6: view

No data available for Pathways by source and SIGNOR curated interactions for LARP6 Gene

Drugs & Compounds for LARP6 Gene

No Compound Related Data Available

Transcripts for LARP6 Gene

mRNA/cDNA for LARP6 Gene

Unigene Clusters for LARP6 Gene

La ribonucleoprotein domain family, member 6:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LARP6 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6a · 6b · 6c
SP1: - - - -
SP2: - - - -
SP3: - - -
SP4: - -
SP5: -

Relevant External Links for LARP6 Gene

GeneLoc Exon Structure for
LARP6
ECgene alternative splicing isoforms for
LARP6

Expression for LARP6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LARP6 Gene

Protein differential expression in normal tissues from HIPED for LARP6 Gene

This gene is overexpressed in Pancreatic juice (47.7) and Testis (9.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LARP6 Gene



NURSA nuclear receptor signaling pathways regulating expression of LARP6 Gene:

LARP6

SOURCE GeneReport for Unigene cluster for LARP6 Gene:

Hs.416755

mRNA Expression by UniProt/SwissProt for LARP6 Gene:

Q9BRS8-LARP6_HUMAN
Tissue specificity: Expressed in numerous tissues.

Evidence on tissue expression from TISSUES for LARP6 Gene

  • Nervous system(4.7)
  • Muscle(4.3)
  • Adrenal gland(4.2)
  • Stomach(2.4)
genes like me logo Genes that share expression patterns with LARP6: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for LARP6 Gene

Orthologs for LARP6 Gene

This gene was present in the common ancestor of animals.

Orthologs for LARP6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LARP6 34 33
  • 99.66 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LARP6 34 33
  • 89.21 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LARP6 34 33
  • 88.05 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Larp6 16 34 33
  • 86.76 (n)
rat
(Rattus norvegicus)
Mammalia Larp6 33
  • 85.88 (n)
oppossum
(Monodelphis domestica)
Mammalia LARP6 34
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves LARP6 34 33
  • 68.29 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LARP6 34
  • 69 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia larp6 33
  • 67.45 (n)
Str.18770 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.15302 33
zebrafish
(Danio rerio)
Actinopterygii larp6 34 33
  • 61.86 (n)
OneToOne
wufi75f12 33
fruit fly
(Drosophila melanogaster)
Insecta CG17386 34
  • 15 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5410 34
  • 38 (a)
OneToMany
-- 34
  • 30 (a)
OneToMany
CSA.6213 34
  • 22 (a)
OneToMany
Species where no ortholog for LARP6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 LARP6 Gene

ENSEMBL:
Gene Tree for LARP6 (if available)
TreeFam:
Gene Tree for LARP6 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LARP6: view image

Paralogs for LARP6 Gene

Paralogs for LARP6 Gene

genes like me logo Genes that share paralogs with LARP6: view

Variants for LARP6 Gene

Sequence variations from dbSNP and Humsavar for LARP6 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000144874 -- 70,855,394(-) T/G upstream_transcript_variant
rs1000205198 -- 70,847,955(-) A/G genic_downstream_transcript_variant, intron_variant
rs1000239839 -- 70,841,014(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000337405 -- 70,834,048(-) G/A genic_downstream_transcript_variant, intron_variant
rs1000390085 -- 70,834,419(-) G/T genic_downstream_transcript_variant, intron_variant

Variation tolerance for LARP6 Gene

Residual Variation Intolerance Score: 19% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.92; 19.09% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LARP6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LARP6

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for LARP6 Gene

Disorders for LARP6 Gene

Additional Disease Information for LARP6

No disorders were found for LARP6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LARP6 Gene

Publications for LARP6 Gene

  1. A novel role of RNA helicase A in regulation of translation of type I collagen mRNAs. (PMID: 22190748) Manojlovic Z … Stefanovic B (RNA (New York, N.Y.) 2012) 3 4 58
  2. A novel role of vimentin filaments: binding and stabilization of collagen mRNAs. (PMID: 21746880) Challa AA … Stefanovic B (Molecular and cellular biology 2011) 3 4 58
  3. Binding of LARP6 to the conserved 5' stem-loop regulates translation of mRNAs encoding type I collagen. (PMID: 19917293) Cai L … Stefanovic B (Journal of molecular biology 2010) 3 22 58
  4. Nonmuscle myosin-dependent synthesis of type I collagen. (PMID: 20603131) Cai L … Stefanovic B (Journal of molecular biology 2010) 3 4 58
  5. Acheron, a novel member of the Lupus Antigen family, is induced during the programmed cell death of skeletal muscles in the moth Manduca sexta. (PMID: 17383118) Valavanis C … Schwartz LM (Gene 2007) 3 4 58

Products for LARP6 Gene

Sources for LARP6 Gene

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