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LYPD3 LY6/PLAUR domain containing 3 [ Homo sapiens (human) ]

Gene ID: 27076, updated on 17-Sep-2024

Summary

Official Symbol
LYPD3provided by HGNC
Official Full Name
LY6/PLAUR domain containing 3provided by HGNC
Primary source
HGNC:HGNC:24880
See related
Ensembl:ENSG00000124466 MIM:609484; AllianceGenome:HGNC:24880
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
C4.4A
Summary
Predicted to enable laminin binding activity. Predicted to act upstream of or within cell-matrix adhesion. Located in extracellular space. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in esophagus (RPKM 319.1) and skin (RPKM 226.0) See more
Orthologs
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Genomic context

See LYPD3 in Genome Data Viewer
Location:
19q13.31
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (43460787..43465608, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (46281130..46285954, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (43964939..43969760, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene CD177 molecule pseudogene 1 Neighboring gene testis expressed 101 Neighboring gene RNA, 28S ribosomal pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr19:43917243-43917429 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14723 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14724 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10717 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:43967981-43968512 Neighboring gene pleckstrin homology like domain family B member 3 Neighboring gene Sharpr-MPRA regulatory region 2471 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:44008034-44008556 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10719 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:44017305-44017805 Neighboring gene ETHE1 persulfide dioxygenase Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10720 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:44029999-44030504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:44030505-44031009 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10721

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
The Contribution of Common Genetic Variation to Nicotine and Cotinine Glucuronidation in Multiple Ethnic/Racial Populations.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables laminin binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in cell-matrix adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of smooth muscle cell apoptotic process IGI
Inferred from Genetic Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in extracellular region TAS
Traceable Author Statement
more info
 
located_in extracellular space HDA PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
PubMed 
located_in side of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
ly6/PLAUR domain-containing protein 3
Names
2310061G07Rik
GPI-anchored metastasis-associated protein C4.4A homolog
GPI-anchored metastasis-associated protein homolog
MIG-C4
matrigel-induced gene C4 protein

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_014400.3NP_055215.2  ly6/PLAUR domain-containing protein 3 precursor

    See identical proteins and their annotated locations for NP_055215.2

    Status: VALIDATED

    Source sequence(s)
    AC018758, BC039167, BP367221, DA837818
    Consensus CDS
    CCDS12620.1
    UniProtKB/Swiss-Prot
    O95274, Q9UJ74
    UniProtKB/TrEMBL
    A8K4E0, B2RBR3
    Related
    ENSP00000244333.2, ENST00000244333.4
    Conserved Domains (2) summary
    cd00117
    Location:31116
    LU; Ly-6 antigen / uPA receptor -like domain; occurs singly in GPI-linked cell-surface glycoproteins (Ly-6 family,CD59, thymocyte B cell antigen, Sgp-2) or as three-fold repeated domain in urokinase-type plasminogen activator receptor. Topology of these ...
    pfam00021
    Location:140222
    UPAR_LY6; u-PAR/Ly-6 domain

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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    43460787..43465608 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    46281130..46285954 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)