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GDE1 glycerophosphodiester phosphodiesterase 1 [ Homo sapiens (human) ]

Gene ID: 51573, updated on 22-Sep-2022

Summary

Official Symbol
GDE1provided by HGNC
Official Full Name
glycerophosphodiester phosphodiesterase 1provided by HGNC
Primary source
HGNC:HGNC:29644
See related
Ensembl:ENSG00000006007 MIM:605943; AllianceGenome:HGNC:29644
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
MIR16; 363E6.2
Summary
Predicted to enable glycerophosphodiester phosphodiesterase activity; glycerophosphoinositol glycerophosphodiesterase activity; and lysophospholipase activity. Predicted to be involved in N-acylethanolamine metabolic process; ethanolamine metabolic process; and phospholipid metabolic process. Predicted to be located in plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in colon (RPKM 28.1), fat (RPKM 25.8) and 25 other tissues See more
Orthologs
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Genomic context

See GDE1 in Genome Data Viewer
Location:
16p12.3
Exon count:
6
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (19501693..19522098, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (19432571..19452970, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (19513015..19533420, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene transmembrane channel like 5 Neighboring gene uncharacterized LOC124903659 Neighboring gene RNA, U4 small nuclear 46, pseudogene Neighboring gene centriolar coiled-coil protein 110 Neighboring gene VPS35 endosomal protein sorting factor like

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables glycerophosphodiester phosphodiesterase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables glycerophosphodiester phosphodiesterase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables glycerophosphodiester phosphodiesterase activity TAS
Traceable Author Statement
more info
PubMed 
enables glycerophosphoinositol glycerophosphodiesterase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables glycerophosphoinositol glycerophosphodiesterase activity TAS
Traceable Author Statement
more info
 
enables lysophospholipase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in N-acylethanolamine metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in N-acylethanolamine metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in ethanolamine metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in ethanolamine metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in glycerophospholipid catabolic process TAS
Traceable Author Statement
more info
 
involved_in lipid metabolic process TAS
Traceable Author Statement
more info
PubMed 
involved_in phospholipid metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in phospholipid metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
located_in cytoplasmic vesicle membrane IEA
Inferred from Electronic Annotation
more info
 
located_in membrane TAS
Traceable Author Statement
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
glycerophosphodiester phosphodiesterase 1
Names
RGS16-interacting membrane protein
glycerophosphoinositol glycerophosphodiesterase GDE1
lysophospholipase D GDE1
membrane interacting protein of RGS16
NP_001310995.1
NP_001310996.1
NP_057725.1

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.

mRNA and Protein(s)

  1. NM_001324066.2NP_001310995.1  glycerophosphodiester phosphodiesterase 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC003108, AC012621, AC130456
    UniProtKB/TrEMBL
    A0A024QYU1
    Conserved Domains (1) summary
    cd08573
    Location:1213
    GDPD_GDE1; Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE1 and similar proteins
  2. NM_001324067.2NP_001310996.1  glycerophosphodiester phosphodiesterase 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC003108, AC012621, AC130456
    Conserved Domains (2) summary
    cd08573
    Location:68292
    GDPD_GDE1; Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE1 and similar proteins
    pfam03009
    Location:70275
    GDPD; Glycerophosphoryl diester phosphodiesterase family
  3. NM_016641.4NP_057725.1  glycerophosphodiester phosphodiesterase 1 isoform 1

    See identical proteins and their annotated locations for NP_057725.1

    Status: VALIDATED

    Source sequence(s)
    AF306698, BC012153, BQ897064
    Consensus CDS
    CCDS10578.1
    UniProtKB/Swiss-Prot
    Q7KYR4, Q9NZC3
    Related
    ENSP00000261386.3, ENST00000353258.8
    Conserved Domains (1) summary
    cd08573
    Location:68323
    GDPD_GDE1; Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE1 and similar proteins

RNA

  1. NR_136689.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC003108, AC012621, AC130456

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    19501693..19522098 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    19432571..19452970 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)