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PLXDC2 plexin domain containing 2 [ Homo sapiens (human) ]

Gene ID: 84898, updated on 10-Dec-2024

Summary

Official Symbol
PLXDC2provided by HGNC
Official Full Name
plexin domain containing 2provided by HGNC
Primary source
HGNC:HGNC:21013
See related
Ensembl:ENSG00000120594 MIM:606827; AllianceGenome:HGNC:21013
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
TEM7R; PLXDC2-OT
Summary
Predicted to be located in membrane. [provided by Alliance of Genome Resources, Dec 2024]
Expression
Ubiquitous expression in gall bladder (RPKM 10.7), lung (RPKM 7.5) and 24 other tissues See more
Orthologs
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Genomic context

See PLXDC2 in Genome Data Viewer
Location:
10p12.31
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (19816432..20289856)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (19834692..20308236)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (20105361..20578785)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902388 Neighboring gene RNA, U6 small nuclear 1212, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:20104285-20105050 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:20208919-20209420 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3117 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3118 Neighboring gene NANOG hESC enhancer GRCh37_chr10:20408149-20408686 Neighboring gene NANOG hESC enhancer GRCh37_chr10:20413464-20413975 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:20546341-20546868 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr10:20659563-20660207 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:20661486-20662107 Neighboring gene adenosylmethionine decarboxylase 1 pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:20716465-20716965 Neighboring gene microRNA 4675

Genomic regions, transcripts, and products

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
A genome-wide association study (GWAS) for bronchopulmonary dysplasia.
EBI GWAS Catalog
Genome-wide association study of diabetic retinopathy in a Taiwanese population.
EBI GWAS Catalog

Interactions

General gene information

Clone Names

  • FLJ14623

Gene Ontology Provided by GOA

Component Evidence Code Pubs
located_in membrane  

General protein information

Preferred Names
plexin domain-containing protein 2
Names
1200007L24Rik
tumor endothelial marker 7-related 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_001282736.2NP_001269665.1  plexin domain-containing protein 2 isoform 2

    See identical proteins and their annotated locations for NP_001269665.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AC067743, AI311457, AL353147, AL353790, AY358486, BC012885
    Consensus CDS
    CCDS60497.1
    UniProtKB/TrEMBL
    B4E367
    Related
    ENSP00000366450.3, ENST00000377242.7
    Conserved Domains (2) summary
    pfam01437
    Location:278323
    PSI; Plexin repeat
    cl02648
    Location:142233
    NIDO; Nidogen-like
  2. NM_032812.9NP_116201.7  plexin domain-containing protein 2 isoform 1 precursor

    See identical proteins and their annotated locations for NP_116201.7

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC067743, AI311457, AL353147, AL353790, AY358486
    Consensus CDS
    CCDS7132.1
    UniProtKB/Swiss-Prot
    Q6UX71, Q96E59, Q96PD9, Q96SU9
    UniProtKB/TrEMBL
    B4E367
    Related
    ENSP00000366460.3, ENST00000377252.5
    Conserved Domains (2) summary
    pfam01437
    Location:327372
    PSI; Plexin repeat
    cl02648
    Location:191282
    NIDO; Nidogen-like

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    19816432..20289856
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011519750.3XP_011518052.1  plexin domain-containing protein 2 isoform X1

    UniProtKB/TrEMBL
    B4E367
    Conserved Domains (2) summary
    pfam01437
    Location:327372
    PSI; Plexin repeat
    cl02648
    Location:191282
    NIDO; Nidogen-like

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    19834692..20308236
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054367033.1XP_054223008.1  plexin domain-containing protein 2 isoform X1

    UniProtKB/TrEMBL
    B4E367
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