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PALM3 paralemmin 3 [ Homo sapiens (human) ]

Gene ID: 342979, updated on 1-Mar-2024

Summary

Official Symbol
PALM3provided by HGNC
Official Full Name
paralemmin 3provided by HGNC
Primary source
HGNC:HGNC:33274
See related
Ensembl:ENSG00000187867 AllianceGenome:HGNC:33274
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
Summary
Predicted to enable ATP binding activity. Involved in Toll signaling pathway; negative regulation of cytokine-mediated signaling pathway; and response to lipopolysaccharide. Predicted to be located in cytoplasm and plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in kidney (RPKM 13.7), liver (RPKM 6.5) and 10 other tissues See more
Orthologs
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Genomic context

See PALM3 in Genome Data Viewer
Location:
19p13.12
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (14053367..14062076, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (14179657..14188366, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (14164179..14172888, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14152 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10222 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10223 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10224 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10225 Neighboring gene relaxin 3 Neighboring gene interleukin 27 receptor subunit alpha Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:14153631-14154131 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14166912-14167412 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14167413-14167913 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14172829-14173383 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10226 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10227 Neighboring gene eukaryotic translation elongation factor 1 delta pseudogene 1 Neighboring gene microRNA 1199 Neighboring gene MISP family member 3

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP 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 Toll signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in Toll signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of cytokine-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of cytokine-mediated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of cell shape IEA
Inferred from Electronic Annotation
more info
 
involved_in response to lipopolysaccharide IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in response to lipopolysaccharide IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 

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_001145028.2NP_001138500.2  paralemmin-3 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC022098
    Consensus CDS
    CCDS46001.2
    UniProtKB/Swiss-Prot
    A6NDB9
    UniProtKB/TrEMBL
    A0A590UJ36
    Related
    ENSP00000499271.1, ENST00000669674.2
    Conserved Domains (2) summary
    cl25750
    Location:571674
    DamX; Cell division protein DamX, binds to the septal ring, contains C-terminal SPOR domain [Cell cycle control, cell division, chromosome partitioning]
    cl27511
    Location:386578
    Na_Ca_ex; Sodium/calcium exchanger protein
  2. NM_001367327.1NP_001354256.1  paralemmin-3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to variant 1.
    Source sequence(s)
    AC022098
    Consensus CDS
    CCDS92540.1
    UniProtKB/TrEMBL
    A0A590UJ23, K7EKN5
    Related
    ENSP00000465701.2, ENST00000589048.2
    Conserved Domains (2) summary
    cl25750
    Location:505608
    DamX; Cell division protein DamX, binds to the septal ring, contains C-terminal SPOR domain [Cell cycle control, cell division, chromosome partitioning]
    cl27511
    Location:320512
    Na_Ca_ex; Sodium/calcium exchanger protein

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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
    14053367..14062076 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047438763.1XP_047294719.1  paralemmin-3 isoform X1

    UniProtKB/TrEMBL
    A0A590UJ23
  2. XM_047438764.1XP_047294720.1  paralemmin-3 isoform X2

    UniProtKB/TrEMBL
    A0A590UJ23, K7EKN5
    Related
    ENSP00000499248.1, ENST00000661591.1

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_021160022.1 Reference GRCh38.p14 PATCHES

    Range
    265208..273917 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054332689.1XP_054188664.1  paralemmin-3 isoform X1

    UniProtKB/TrEMBL
    A0A590UJ23
  2. XM_054332690.1XP_054188665.1  paralemmin-3 isoform X2

    UniProtKB/TrEMBL
    A0A590UJ23, K7EKN5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    14179657..14188366 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054320853.1XP_054176828.1  paralemmin-3 isoform X1

    UniProtKB/TrEMBL
    A0A590UJ23
  2. XM_054320854.1XP_054176829.1  paralemmin-3 isoform X2

    UniProtKB/TrEMBL
    A0A590UJ23