Aliases for LSM12 Gene

Aliases for LSM12 Gene

  • LSM12 Homolog 2 3 5
  • Protein LSM12 Homolog 3 4
  • LSM12 Homolog (S. Cerevisiae) 2
  • PNAS-135 3
  • FLJ30656 2
  • LSM12 5

External Ids for LSM12 Gene

Previous GeneCards Identifiers for LSM12 Gene

  • GC17M039468
  • GC17M042112
  • GC17M037876

Summaries for LSM12 Gene

GeneCards Summary for LSM12 Gene

LSM12 (LSM12 Homolog) is a Protein Coding gene.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LSM12 Gene

Genomics for LSM12 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LSM12 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LSM12 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LSM12

Top Transcription factor binding sites by QIAGEN in the LSM12 gene promoter:
  • Nkx2-5
  • Nkx5-1
  • PPAR-gamma1
  • PPAR-gamma2
  • SREBP-1a
  • SREBP-1b
  • SREBP-1c
  • TFIID
  • Zic1

Genomic Locations for LSM12 Gene

Latest Assembly
chr17:44,034,328-44,067,619
(GRCh38/hg38)
Size:
33,292 bases
Orientation:
Minus strand

Previous Assembly
chr17:42,111,696-42,144,955
(GRCh37/hg19 by Entrez Gene)
Size:
33,260 bases
Orientation:
Minus strand

chr17:42,112,003-42,144,987
(GRCh37/hg19 by Ensembl)
Size:
32,985 bases
Orientation:
Minus strand

Genomic View for LSM12 Gene

Genes around LSM12 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LSM12 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LSM12 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LSM12 Gene

Proteins for LSM12 Gene

  • Protein details for LSM12 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q3MHD2-LSM12_HUMAN
    Recommended name:
    Protein LSM12 homolog
    Protein Accession:
    Q3MHD2
    Secondary Accessions:
    • Q86YB1
    • Q96NL5

    Protein attributes for LSM12 Gene

    Size:
    195 amino acids
    Molecular mass:
    21701 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for LSM12 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LSM12 Gene

Post-translational modifications for LSM12 Gene

  • Ubiquitination at Lys86
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LSM12 Gene

Domains & Families for LSM12 Gene

Gene Families for LSM12 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for LSM12 Gene

Suggested Antigen Peptide Sequences for LSM12 Gene

GenScript: Design optimal peptide antigens:
  • Protein LSM12 homolog (LSM12_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q3MHD2

UniProtKB/Swiss-Prot:

LSM12_HUMAN :
  • Belongs to the LSM12 family.
Family:
  • Belongs to the LSM12 family.
genes like me logo Genes that share domains with LSM12: view

Function for LSM12 Gene

Phenotypes From GWAS Catalog for LSM12 Gene

Gene Ontology (GO) - Molecular Function for LSM12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 32296183
genes like me logo Genes that share ontologies with LSM12: view
genes like me logo Genes that share phenotypes with LSM12: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LSM12

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LSM12 Gene

Localization for LSM12 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LSM12 gene
Compartment Confidence
cytosol 3
nucleus 2
extracellular 1
cytoskeleton 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for LSM12 Gene

Pathways & Interactions for LSM12 Gene

PathCards logo

SuperPathways for LSM12 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LSM12 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LSM12 Gene

Drugs & Compounds for LSM12 Gene

No Compound Related Data Available

Transcripts for LSM12 Gene

mRNA/cDNA for LSM12 Gene

5 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LSM12

Alternative Splicing Database (ASD) splice patterns (SP) for LSM12 Gene

No ASD Table

Relevant External Links for LSM12 Gene

GeneLoc Exon Structure for
LSM12

Expression for LSM12 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LSM12 Gene

Protein differential expression in normal tissues from HIPED for LSM12 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (11.4) and Lung (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LSM12 Gene



Protein tissue co-expression partners for LSM12 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LSM12

SOURCE GeneReport for Unigene cluster for LSM12 Gene:

Hs.355570

Evidence on tissue expression from TISSUES for LSM12 Gene

  • Nervous system(2.4)
  • Kidney(2.3)
  • Liver(2.2)
  • Heart(2.1)
  • Muscle(2)
genes like me logo Genes that share expression patterns with LSM12: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LSM12 Gene

Orthologs for LSM12 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for LSM12 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LSM12 30 31
  • 99.83 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia LSM12 30 31
  • 98.63 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LSM12 30 31
  • 98.29 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Lsm12 30 17 31
  • 97.09 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Lsm12 30
  • 97.09 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia LSM12 31
  • 91 (a)
OneToOne
Chicken
(Gallus gallus)
Aves LSM12 31
  • 94 (a)
OneToOne
TMEM101 30
  • 85.84 (n)
Lizard
(Anolis carolinensis)
Reptilia LSM12 31
  • 94 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.25564 30
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC394627 30
Zebrafish
(Danio rerio)
Actinopterygii lsm12b 30 31
  • 78.8 (n)
OneToMany
lsm12a 31
  • 77 (a)
OneToMany
wufe01f11 30
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10493 30
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002167 30
  • 51.55 (n)
Fruit Fly
(Drosophila melanogaster)
Insecta CG15735 30 31
  • 46.09 (n)
OneToMany
CG14164 31
  • 30 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes LSM12 31 33
  • 24 (a)
OneToOne
Species where no ortholog for LSM12 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for LSM12 Gene

ENSEMBL:
Gene Tree for LSM12 (if available)
TreeFam:
Gene Tree for LSM12 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LSM12: view image

Paralogs for LSM12 Gene

Pseudogenes.org Pseudogenes for LSM12 Gene

genes like me logo Genes that share paralogs with LSM12: view

No data available for Paralogs for LSM12 Gene

Variants for LSM12 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LSM12 Gene

SNP ID Clinical significance and condition Chr 17 pos Variation AA Info Type
rs17854322 - p.Pro77Arg
rs59168537 - p.Val173Leu

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LSM12 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for LSM12 Gene

Variant ID Type Subtype PubMed ID
esv2662976 CNV deletion 23128226
esv3640641 CNV loss 21293372
nsv1146669 OTHER inversion 26484159
nsv833454 CNV loss 17160897

Variation tolerance for LSM12 Gene

Residual Variation Intolerance Score: 54.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.09; 22.20% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LSM12 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LSM12

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LSM12 Gene

Disorders for LSM12 Gene

Additional Disease Information for LSM12

No disorders were found for LSM12 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LSM12 Gene

Publications for LSM12 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  2. Novel Sm-like proteins with long C-terminal tails and associated methyltransferases. (PMID: 15225602) Albrecht M … Lengauer T (FEBS letters 2004) 2 3
  3. Systems analysis of RhoGEF and RhoGAP regulatory proteins reveals spatially organized RAC1 signalling from integrin adhesions. (PMID: 32203420) Müller PM … Rocks O (Nature cell biology 2020) 3
  4. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  5. DELTEX2 C-terminal domain recognizes and recruits ADP-ribosylated proteins for ubiquitination. (PMID: 32937373) Ahmed SF … Huang DT (Science advances 2020) 3

Products for LSM12 Gene

Sources for LSM12 Gene