The protein encoded by this gene belongs to the mitochondrial leucine/tyrosine/arginine motif family of proteins. Proteins of this family are short polypeptides that contain a leucine/tyrosine/arginine motif near the N-terminus. This gene is widely expressed with high levels in omental adipose tissue of obese individuals. In adipose tissue, the protein is localized to the nucle... See more...

Aliases for LYRM1 Gene

Aliases for LYRM1 Gene

  • LYR Motif Containing 1 2 3 5
  • LYR Motif-Containing Protein 1 3 4
  • A211C6.1 3

External Ids for LYRM1 Gene

Previous GeneCards Identifiers for LYRM1 Gene

  • GC16P020820
  • GC16P019446

Summaries for LYRM1 Gene

Entrez Gene Summary for LYRM1 Gene

  • The protein encoded by this gene belongs to the mitochondrial leucine/tyrosine/arginine motif family of proteins. Proteins of this family are short polypeptides that contain a leucine/tyrosine/arginine motif near the N-terminus. This gene is widely expressed with high levels in omental adipose tissue of obese individuals. In adipose tissue, the protein is localized to the nucleus where it promotes preadipocyte proliferation and lowers the rate of apoptosis to regulate adipose tissue homeostasis. Overexpression of this gene in adipocytes causes abnormal mitochondrial morphology and mitochondrial dysfunction. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2014]

GeneCards Summary for LYRM1 Gene

LYRM1 (LYR Motif Containing 1) is a Protein Coding gene. Diseases associated with LYRM1 include Central Hypoventilation Syndrome, Congenital.

UniProtKB/Swiss-Prot Summary for LYRM1 Gene

  • May promote cell proliferation and inhibition of apoptosis of preadipocytes.

Additional gene information for LYRM1 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LYRM1 Gene

Genomics for LYRM1 Gene

GeneHancer (GH) Regulatory Elements for LYRM1 Gene

Promoters and enhancers for LYRM1 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
GH16J020896 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 507.5 +3.9 3851 11.5 EP300 FOXK2 HNRNPK ZNF217 SIN3A NRF1 MYC POLR2G SP1 NCOR1 DCUN1D3 LYRM1 THUMPD1 NPIPB4 ACSM3 SMG1P3 ACSM1 NPIPB3 ENSG00000260510 CRYM
GH16J020864 Promoter/Enhancer 1.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 12.7 -29.1 -29104 13.8 HNRNPK TCF12 USF1 SP1 GTF2E2 JUND FOS CTCF EP300 ZIC2 DCUN1D3 ACSM3 LYRM1 THUMPD1 DNAH3 TMEM159 piR-35918 ERI2
GH16J020849 Enhancer 1.3 FANTOM5 ENCODE dbSUPER 11.8 -47.5 -47489 2.7 RXRA CTCF ZSCAN5C POLR2A REST MYC RAD21 TRIM22 TEAD1 SMC3 piR-35918 THUMPD1 LYRM1 DCUN1D3 DNAH3 TMEM159 ERI2
GH16J020825 Enhancer 1.1 Ensembl ENCODE 10.6 -72.9 -72865 1.7 ZBTB11 HES1 TOE1 CTBP1 MYC TAF9B HDAC3 NCOR1 NEUROD1 ZNF316 THUMPD1 ACSM3 DCUN1D3 LYRM1 DNAH3 TMEM159 ENSG00000275908 LOC105371121 REXO5 ERI2
GH16J020859 Promoter/Enhancer 1 EPDnew Ensembl dbSUPER 11.7 -39.2 -39204 0.4 ZNF316 MAFG ZNF384 LCORL ZNF362 EMSY DCUN1D3 LYRM1 DNAH3 TMEM159 piR-35918 ERI2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LYRM1 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LYRM1

Top Transcription factor binding sites by QIAGEN in the LYRM1 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5

Genomic Locations for LYRM1 Gene

Genomic Locations for LYRM1 Gene
chr16:20,898,805-20,925,006
(GRCh38/hg38)
Size:
26,202 bases
Orientation:
Plus strand
chr16:20,911,190-20,936,328
(GRCh37/hg19)
Size:
25,139 bases
Orientation:
Plus strand

Genomic View for LYRM1 Gene

Genes around LYRM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LYRM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LYRM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LYRM1 Gene

Proteins for LYRM1 Gene

  • Protein details for LYRM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43325-LYRM1_HUMAN
    Recommended name:
    LYR motif-containing protein 1
    Protein Accession:
    O43325
    Secondary Accessions:
    • B2R4M5

    Protein attributes for LYRM1 Gene

    Size:
    122 amino acids
    Molecular mass:
    14282 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LYRM1 Gene

Post-translational modifications for LYRM1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LYRM1 Gene

Domains & Families for LYRM1 Gene

Gene Families for LYRM1 Gene

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

Protein Domains for LYRM1 Gene

Blocks:
  • Complex 1 LYR protein
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LYRM1 Gene

GenScript: Design optimal peptide antigens:
  • LYR motif-containing protein 1 (LYRM1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O43325

UniProtKB/Swiss-Prot:

LYRM1_HUMAN :
  • Belongs to the complex I LYR family.
Family:
  • Belongs to the complex I LYR family.
genes like me logo Genes that share domains with LYRM1: view

Function for LYRM1 Gene

Molecular function for LYRM1 Gene

UniProtKB/Swiss-Prot Function:
May promote cell proliferation and inhibition of apoptosis of preadipocytes.

Phenotypes From GWAS Catalog for LYRM1 Gene

genes like me logo Genes that share phenotypes with LYRM1: view

Animal Model Products

CRISPR Products

miRNA for LYRM1 Gene

miRTarBase miRNAs that target LYRM1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LYRM1 Gene

Localization for LYRM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LYRM1 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 LYRM1 gene
Compartment Confidence
nucleus 4
mitochondrion 2
cytosol 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (3)
  • Midbody (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LYRM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0030496 midbody IDA --
genes like me logo Genes that share ontologies with LYRM1: view

Pathways & Interactions for LYRM1 Gene

PathCards logo

SuperPathways for LYRM1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LYRM1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LYRM1 Gene

Drugs & Compounds for LYRM1 Gene

No Compound Related Data Available

Transcripts for LYRM1 Gene

mRNA/cDNA for LYRM1 Gene

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

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LYRM1 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c · 2d ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c · 8d · 8e · 8f · 8g · 8h
SP1: - - - - - - - -
SP2: -
SP3: - - - - -
SP4: - - - - - - - - - -
SP5: - - - - - - - -
SP6: - - - - - - - - - -
SP7: - - - - - -
SP8: - - - - - -
SP9: - - - - - - - - - - -
SP10: - - - - - - -
SP11: - - - - -

Relevant External Links for LYRM1 Gene

GeneLoc Exon Structure for
LYRM1

Expression for LYRM1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LYRM1 Gene

Protein differential expression in normal tissues from HIPED for LYRM1 Gene

This gene is overexpressed in Heart (40.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LYRM1 Gene



Protein tissue co-expression partners for LYRM1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LYRM1

SOURCE GeneReport for Unigene cluster for LYRM1 Gene:

Hs.745012

mRNA Expression by UniProt/SwissProt for LYRM1 Gene:

O43325-LYRM1_HUMAN
Tissue specificity: High levels in adipose tissue.

Evidence on tissue expression from TISSUES for LYRM1 Gene

  • Intestine(4.2)
  • Nervous system(3)
genes like me logo Genes that share expression patterns with LYRM1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for LYRM1 Gene

Orthologs for LYRM1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LYRM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LYRM1 31 30
  • 100 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LYRM1 31 30
  • 94.26 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LYRM1 31 30
  • 93.44 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lyrm1 30
  • 88.8 (n)
mouse
(Mus musculus)
Mammalia Lyrm1 17 31 30
  • 87.43 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LYRM1 31
  • 83 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LYRM1 31
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves LYRM1 31 30
  • 73.22 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LYRM1 31
  • 77 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lyrm1 30
  • 68.07 (n)
zebrafish
(Danio rerio)
Actinopterygii lyrm1 31 30
  • 59.54 (n)
OneToOne
Species where no ortholog for LYRM1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 LYRM1 Gene

ENSEMBL:
Gene Tree for LYRM1 (if available)
TreeFam:
Gene Tree for LYRM1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LYRM1: view image

Paralogs for LYRM1 Gene

No data available for Paralogs for LYRM1 Gene

Variants for LYRM1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LYRM1 Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
787439 Benign: not provided 20,915,676(+) C/T NON_CODING_TRANSCRIPT_VARIANT,SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for LYRM1 Gene

Structural Variations from Database of Genomic Variants (DGV) for LYRM1 Gene

Variant ID Type Subtype PubMed ID
esv2714066 CNV deletion 23290073
esv2714067 CNV deletion 23290073
nsv436835 CNV insertion 17901297
nsv457444 CNV loss 19166990
nsv571622 CNV loss 21841781

Variation tolerance for LYRM1 Gene

Residual Variation Intolerance Score: 56.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.18; 23.73% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LYRM1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LYRM1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LYRM1 Gene

Disorders for LYRM1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LYRM1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
central hypoventilation syndrome, congenital
  • cchs
- elite association - COSMIC cancer census association via MalaCards
Search LYRM1 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

LYRM1_HUMAN
  • Note=When overexpressed, may be involved in obesity-associated insulin resistance, possibly by causing mitochondrial dysfunction in adipocytes.

Additional Disease Information for LYRM1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with LYRM1: view

No data available for Genatlas for LYRM1 Gene

Publications for LYRM1 Gene

  1. Genome duplications and other features in 12 Mb of DNA sequence from human chromosome 16p and 16q. (PMID: 10493829) Loftus BJ … Adams MD (Genomics 1999) 2 3 4 54
  2. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 41 54
  3. Overexpression of LYRM1 induces mitochondrial impairment in 3T3-L1 adipocytes. (PMID: 20826099) Cao XG … Guo XR (Molecular genetics and metabolism 2010) 3 4 54
  4. LYRM1, a novel gene promotes proliferation and inhibits apoptosis of preadipocytes. (PMID: 19022914) Qiu J … Guo XR (European journal of endocrinology 2009) 3 4 54
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54

Products for LYRM1 Gene

Sources for LYRM1 Gene