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ACP6 acid phosphatase 6, lysophosphatidic [ Homo sapiens (human) ]

Gene ID: 51205, updated on 3-Nov-2024

Summary

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Official Symbol
ACP6provided by HGNC
Official Full Name
acid phosphatase 6, lysophosphatidicprovided by HGNC
Primary source
HGNC:HGNC:29609
See related
Ensembl:ENSG00000162836 MIM:611471; AllianceGenome:HGNC:29609
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LPAP; ACPL1; PACPL1
Summary
This gene encodes a member of the histidine acid phosphatase protein family. The encoded protein hydrolyzes lysophosphatidic acid, which is involved in G protein-coupled receptor signaling, lipid raft modulation, and in balancing lipid composition within the cell. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2016]
Expression
Ubiquitous expression in thyroid (RPKM 3.4), prostate (RPKM 3.3) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See ACP6 in Genome Data Viewer
Location:
1q21.2
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (147629658..147670524, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (147137207..147181884)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (147114029..147142646, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 624 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:146958668-146958835 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1280 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:146974675-146975522 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:146975523-146976368 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:146976369-146977214 Neighboring gene olfactory receptor family 13 subfamily Z member 3 pseudogene Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:146981878-146982536 Neighboring gene MPRA-validated peak403 silencer Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:147012942-147013696 Neighboring gene NANOG hESC enhancer GRCh37_chr1:147016860-147017378 Neighboring gene BCL9 transcription coactivator Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:147067805-147068328 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1281 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1282 Neighboring gene uncharacterized LOC128071544 Neighboring gene Sharpr-MPRA regulatory region 10305 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:147091237-147092116 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:147092117-147092996 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:147113153-147113654 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:147141494-147142437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1635 Neighboring gene uncharacterized LOC105371230 Neighboring gene uncharacterized LOC102723321 Neighboring gene RNA, 7SL, cytoplasmic 261, 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 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. Purification and characterization of a lysophosphatidic acid-specific phosphatase. Hiroyama M, et al. Biochem J, 1998 Dec 1. PMID 9820827, Free PMC Article
  2. The expression characteristics and clinical significance of ACP6, a potential target of nitidine chloride, in hepatocellular carcinoma. Gao L, et al. BMC Cancer, 2022 Dec 1. PMID 36456931, Free PMC Article
  3. Mutant p53 regulates LPA signaling through lysophosphatidic acid phosphatase type 6. Chryplewicz A, et al. Sci Rep, 2019 Mar 26. PMID 30914657, Free PMC Article
  4. Crystal structures and biochemical studies of human lysophosphatidic acid phosphatase type 6. Li J, et al. Protein Cell, 2013 Jul. PMID 23807634, Free PMC Article
  5. Isolation of a cDNA encoding human lysophosphatidic acid phosphatase that is involved in the regulation of mitochondrial lipid biosynthesis. Hiroyama M, et al. J Biol Chem, 1999 Oct 8. PMID 10506173

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The expression characteristics and clinical significance of ACP6, a potential target of nitidine chloride, in hepatocellular carcinoma.
    Title: The expression characteristics and clinical significance of ACP6, a potential target of nitidine chloride, in hepatocellular carcinoma.
  2. Mutant p53 regulates LPA signaling through lysophosphatidic acid phosphatase type 6.
    Title: Mutant p53 regulates LPA signaling through lysophosphatidic acid phosphatase type 6.
  3. structures and biochemical studies of human lysophosphatidic acid phosphatase type 6
    Title: Crystal structures and biochemical studies of human lysophosphatidic acid phosphatase type 6.
  4. Observational study of gene-disease association. (HuGE Navigator)
    Title: Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression.
  5. Human seminal plasma contains this enzyme which converts lysophospholipids to lysophosphatidic acid.
    Title: Prostatic acid phosphatase degrades lysophosphatidic acid in seminal plasma.
  6. acid phosphatase-like protein 1 from human intestinal tissue could be associated with interstitial cells of Cajal function ACPL1
    Title: Novel human and mouse genes encoding an acid phosphatase family member and its downregulation in W/W(V) mouse jejunum.
Submit: New GeneRIF Correction

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

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

Pathways from PubChem

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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 acid phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables lysophosphatidic acid phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables lysophosphatidic acid phosphatase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables lysophosphatidic acid phosphatase activity TAS
Traceable Author Statement
more info
  
Process Evidence Code Pubs
involved_in hematopoietic progenitor cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in lysobisphosphatidic acid metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in lysobisphosphatidic acid metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in phosphatidic acid biosynthetic process TAS
Traceable Author Statement
more info
  
involved_in phospholipid metabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in mitochondrial matrix TAS
Traceable Author Statement
more info
  
located_in mitochondrion HTP PubMed 
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in mitochondrion IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
lysophosphatidic acid phosphatase type 6
Names
acid phosphatase-like protein 1
NP_001310554.1
NP_057445.4
XP_011507903.1
XP_054192891.1

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.

Genomic

  1. NG_050757.1 RefSeqGene

    Range
    5020..33314
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001323625.2 → NP_001310554.1  lysophosphatidic acid phosphatase type 6 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding region, compared to variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC241644

  2. NM_016361.5 → NP_057445.4  lysophosphatidic acid phosphatase type 6 isoform 1

    See identical proteins and their annotated locations for NP_057445.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AB031478, AB209248, AC241644, AL520992, BC009965
    Consensus CDS
    CCDS928.1
    UniProtKB/Swiss-Prot
    Q59G61, Q5T490, Q6IAQ3, Q7LG81, Q9NPH0, Q9UIG6, X5D289
    Related
    ENSP00000463574.1, ENST00000583509.7
    Conserved Domains (1) summary
    cd07061
    Location:49 → 379
    HP_HAP_like; Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction

RNA

  1. NR_136633.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate internal exon and includes an alternate segment in the 3' end, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC241644

  2. NR_136634.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the 5'-terminal exon, includes two alternate internal exons, and includes an alternate segment in the 3' end, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC241644

  3. NR_136635.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC241644

  4. NR_136636.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) uses an alternate splice site in the 5'-terminal exon, includes an alternate internal exon, and includes an alternate segment in the 3' end, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC241644

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    147629658..147670524 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011509601.4 → XP_011507903.1  lysophosphatidic acid phosphatase type 6 isoform X1

    Conserved Domains (1) summary
    cd07061
    Location:49 → 379
    HP_HAP_like; Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    147137207..147181884
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054336916.1 → XP_054192891.1  lysophosphatidic acid phosphatase type 6 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NPH0.3 GenPept UniProtKB/Swiss-Prot:Q9NPH0

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