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Aliases for LSM12 Gene

Aliases for LSM12 Gene

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

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.

Additional gene information for LSM12 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LSM12 Gene

Genomics for LSM12 Gene

GeneHancer (GH) Regulatory Elements for LSM12 Gene

Promoters and enhancers for LSM12 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J044185 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 650.1 -119.4 -119384 3.7 HDGF PKNOX1 FOXA2 SMAD1 ARNT ARID4B SIN3A ZNF2 IRF4 YY1 ASB16-AS1 TMUB2 PIR42921 LSM12 DHX8 EFTUD2 UBTF ASB16 GPATCH8 ENSG00000224505
GH17J044065 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 650.7 +0.8 840 2.8 HDGF PKNOX1 SMAD1 FOXA2 MLX ARNT SIN3A ZNF2 YY1 SLC30A9 LSM12 ENSG00000267002 UBTF ENSG00000267340 ASB16-AS1 HMGN1P29 DHX8 NAGS GPATCH8 TMUB2
GH17J044344 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.8 -279.5 -279539 5.5 PKNOX1 ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 IRF4 YY1 POLR2B GRN UBTF SLC25A39 MEOX1 C17orf53 RUNDC3A-AS1 TMUB2 MAP3K14-AS1 LSM12 RUNDC3A
GH17J043168 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.8 +896.6 896553 5 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC SSRP1 GLIS1 NBR1 PIR60622 LOC101929767 ENSG00000267340 ENSG00000267002 BRCA1P1 BRCA1 NBR2 TMEM106A C17orf53
GH17J045059 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 11.8 -994.1 -994127 4.9 CLOCK MLX ZFP64 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 DCAKD PIR53442 NMT1 ENSG00000262372 ASB16-AS1 TMUB2 UBTF ENSG00000224505 EFTUD2 MAP3K14-AS1
- 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 UCSC Golden Path with GeneCards custom track

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

Genomic Locations for LSM12 Gene

Genomic Locations for LSM12 Gene
chr17:44,034,635-44,067,619
(GRCh38/hg38)
Size:
32,985 bases
Orientation:
Minus strand
chr17:42,112,003-42,144,987
(GRCh37/hg19)
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 posLast=8686
  • Modification sites at PhosphoSitePlus

Other Protein References for LSM12 Gene

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

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LSM12 Gene

GenScript: Design optimal peptide antigens:

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

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

Animal Model Products

CRISPR Products

Inhibitory RNA Products

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

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , 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

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

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

Unigene Clusters for LSM12 Gene

LSM12 homolog (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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

Clone Products

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

No ASD Table

Relevant External Links for LSM12 Gene

GeneLoc Exon Structure for
LSM12
ECgene alternative splicing isoforms for
LSM12

Expression for LSM12 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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

NURSA nuclear receptor signaling pathways regulating expression of LSM12 Gene:

LSM12

SOURCE GeneReport for Unigene cluster for LSM12 Gene:

Hs.355570

Evidence on tissue expression from TISSUES for LSM12 Gene

  • 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 34 33
  • 99.83 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LSM12 34 33
  • 98.63 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LSM12 34 33
  • 98.29 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Lsm12 16 34 33
  • 97.09 (n)
rat
(Rattus norvegicus)
Mammalia Lsm12 33
  • 97.09 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LSM12 34
  • 91 (a)
OneToOne
chicken
(Gallus gallus)
Aves LSM12 34
  • 94 (a)
OneToOne
TMEM101 33
  • 85.84 (n)
lizard
(Anolis carolinensis)
Reptilia LSM12 34
  • 94 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC394627 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.25564 33
zebrafish
(Danio rerio)
Actinopterygii lsm12b 34 33
  • 78.8 (n)
OneToMany
lsm12a 34
  • 77 (a)
OneToMany
wufe01f11 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10493 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002167 33
  • 51.55 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG15735 34 33
  • 46.09 (n)
OneToMany
CG14164 34
  • 30 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes LSM12 36 34
  • 24 (a)
Species where no ortholog for LSM12 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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 squirt (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 from dbSNP and Humsavar for LSM12 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000008182 -- 44,059,039(-) G/A intron_variant
rs1000037423 -- 44,045,322(-) G/A/T genic_downstream_transcript_variant, intron_variant
rs1000103326 -- 44,048,115(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000162475 -- 44,054,138(-) T/C intron_variant
rs1000235787 -- 44,053,898(-) AAAAA/AAA intron_variant

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 Assay Products

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 58
  2. Novel Sm-like proteins with long C-terminal tails and associated methyltransferases. (PMID: 15225602) Albrecht M … Lengauer T (FEBS letters 2004) 2 3 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination. (PMID: 29117863) Choudhury NR … Michlewski G (BMC biology 2017) 3 58
  5. A Map of Human Mitochondrial Protein Interactions Linked to Neurodegeneration Reveals New Mechanisms of Redox Homeostasis and NF-κB Signaling. (PMID: 29128334) Malty RH … Babu M (Cell systems 2017) 3 58

Products for LSM12 Gene

Sources for LSM12 Gene

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