Aliases for LEXM Gene

Aliases for LEXM Gene

  • Lymphocyte Expansion Molecule 2 3 4 5
  • LEM 2 3 4
  • Chromosome 1 Open Reading Frame 177 2
  • C1orf177 3
  • FLJ40201 2
  • LEXM 5

External Ids for LEXM Gene

Previous HGNC Symbols for LEXM Gene

  • C1orf177

Summaries for LEXM Gene

GeneCards Summary for LEXM Gene

LEXM (Lymphocyte Expansion Molecule) is a Protein Coding gene. Diseases associated with LEXM include Emery-Dreifuss Muscular Dystrophy 1, X-Linked and Osteopoikilosis.

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 LEXM Gene

Genomics for LEXM Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LEXM 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
GH01J054806 Promoter/Enhancer 1 Ensembl ENCODE dbSUPER 264 +1.7 1694 1.6 RXRA HNF4A RAD21 KLF1 CTCF ZFHX2 LEXM HSALNG0003799 DHCR24
GH01J054803 Enhancer 0.8 ENCODE dbSUPER 255.7 -1.4 -1411 1.9 ATF3 YY1 REST CEBPB EP300 RXRA TBP FOSL2 JUND EHMT2 LEXM TTC22
GH01J054791 Promoter/Enhancer 1.8 Ensembl ENCODE CraniofacialAtlas dbSUPER 14.6 -8.8 -8833 10.1 MYC SSRP1 ATF2 CEBPA ZIC2 YY1 CTCF CEBPB REST KLF11 LEXM PARS2 TTC4 DHCR24 ENSG00000242396 DHCR24-DT TTC22 ENSG00000237453 piR-57710
GH01J054856 Enhancer 1.3 Ensembl ENCODE dbSUPER 18.3 +53.6 53643 7.8 MYC SSRP1 CEBPA ATF3 MXD4 CEBPB ZFP64 HOMEZ MNT MAX DHCR24-DT DHCR24 LEXM ENSG00000242396 TTC22 ENSG00000237453 LDLRAD1 TCEANC2 TMEM59 TMEM61
GH01J054402 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 7.9 -399.0 -398962 8.6 SP1 MYC NCOR1 IKZF1 JUND ZNF592 NFIC POLR2A ZIC2 CHD4 SSBP3 piR-52433 ENSG00000225632 SSBP3-AS1 TCEANC2 TMEM59 LEXM ENSG00000230728 ENSG00000232245 lnc-CYB5RL-4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

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

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

Genomic Locations for LEXM Gene

Latest Assembly
chr1:54,806,063-54,842,252
(GRCh38/hg38)
Size:
36,190 bases
Orientation:
Plus strand

Previous Assembly
chr1:55,271,736-55,307,925
(GRCh37/hg19 by Entrez Gene)
Size:
36,190 bases
Orientation:
Plus strand

chr1:55,271,736-55,307,925
(GRCh37/hg19 by Ensembl)
Size:
36,190 bases
Orientation:
Plus strand

Genomic View for LEXM Gene

Genes around LEXM on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for LEXM Gene

Proteins for LEXM Gene

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

    Protein Symbol:
    Q3ZCV2-LEXM_HUMAN
    Recommended name:
    Lymphocyte expansion molecule
    Protein Accession:
    Q3ZCV2
    Secondary Accessions:
    • B7WPL2
    • Q8N7Y9

    Protein attributes for LEXM Gene

    Size:
    418 amino acids
    Molecular mass:
    47583 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for LEXM Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LEXM Gene

Post-translational modifications for LEXM Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LEXM Gene

No data available for DME Specific Peptides for LEXM Gene

Domains & Families for LEXM Gene

Gene Families for LEXM Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for LEXM Gene

InterPro:
genes like me logo Genes that share domains with LEXM: view

No data available for Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LEXM Gene

Function for LEXM Gene

Phenotypes From GWAS Catalog for LEXM Gene

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

Animal Models for LEXM Gene

MGI Knock Outs for LEXM:
  • Lexm Lexm<tm1a(KOMP)Wtsi>

Inhibitory RNAs for research

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

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for LEXM Gene

Localization for LEXM 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 LEXM gene
Compartment Confidence
nucleus 3
cytosol 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
golgi apparatus 0

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for LEXM Gene

Pathways & Interactions for LEXM Gene

PathCards logo

SuperPathways for LEXM Gene

No Data Available

Gene Ontology (GO) - Biological Process for LEXM Gene

None

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

Drugs & Compounds for LEXM Gene

No Compound Related Data Available

Transcripts for LEXM Gene

mRNA/cDNA for LEXM Gene

2 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
2 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 LEXM

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

No ASD Table

Relevant External Links for LEXM Gene

GeneLoc Exon Structure for
LEXM

Expression for LEXM Gene

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

No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LEXM Gene

Orthologs for LEXM Gene

This gene was present in the common ancestor of chordates.

Orthologs for LEXM Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia C1H1orf177 29
  • 98.88 (n)
C1orf177 30
  • 98 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia C5H1orf177 29
  • 85.51 (n)
C1orf177 30
  • 81 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia C3H1orf177 29
  • 83.8 (n)
C1orf177 30
  • 77 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia BC055111 29 30
  • 78.94 (n)
OneToOne
Lexm 16
Rat
(Rattus norvegicus)
Mammalia RGD1559493 29
  • 78.64 (n)
Oppossum
(Monodelphis domestica)
Mammalia C1orf177 30
  • 45 (a)
OneToOne
Chicken
(Gallus gallus)
Aves C8H1ORF177 29
  • 54.19 (n)
C1orf177 30
  • 42 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia C1orf177 30
  • 46 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100491026 29
  • 51.91 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 30
  • 37 (a)
OneToMany
-- 30
  • 31 (a)
OneToMany
Species where no ortholog for LEXM was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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)
  • Zebrafish (Danio rerio)

Evolution for LEXM Gene

ENSEMBL:
Gene Tree for LEXM (if available)
TreeFam:
Gene Tree for LEXM (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LEXM: view image
Alliance of Genome Resources:
Additional Orthologs for LEXM

Paralogs for LEXM Gene

No data available for Paralogs for LEXM Gene

Variants for LEXM Gene

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

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs600499 -- p.His205Tyr
rs9782980 -- p.Gly126Cys

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

Variant ID Type Subtype PubMed ID
dgv38e212 CNV gain 25503493
esv1224986 CNV deletion 17803354
esv1945281 CNV deletion 18987734
esv23914 CNV loss 19812545
esv2421957 CNV duplication 20811451
esv2657155 CNV deletion 23128226
esv2675514 CNV deletion 23128226
esv2748352 CNV deletion 23290073
esv2748364 CNV deletion 23290073
esv2758937 CNV loss 17122850
esv3026 CNV loss 18987735
esv3562159 CNV deletion 23714750
esv3586102 CNV loss 21293372
esv6692 CNV loss 19470904
nsv1000673 CNV gain 25217958
nsv10173 CNV loss 18304495
nsv1110661 CNV insertion 24896259
nsv160901 CNV insertion 16902084
nsv441694 CNV loss 18776908
nsv461561 CNV gain 19166990
nsv514928 CNV gain 21397061
nsv546266 CNV gain 21841781
nsv546300 CNV loss 21841781
nsv817614 CNV gain 22305530
nsv829915 CNV gain 17160897
nsv958754 CNV deletion 24416366

Variation tolerance for LEXM Gene

Residual Variation Intolerance Score: 90.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 17.10; 98.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LEXM Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LEXM
Leiden Open Variation Database (LOVD)
LEXM

SNP Genotyping and Copy Number Assays for research

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

Disorders for LEXM Gene

MalaCards: The human disease database

(3) MalaCards diseases for LEXM Gene - From: COP

Disorder Aliases PubMed IDs
emery-dreifuss muscular dystrophy 1, x-linked
  • edmd1
osteopoikilosis
  • osteopathia condensans disseminata
emery-dreifuss muscular dystrophy
  • edmd
- elite association - COSMIC cancer census association via MalaCards
Search LEXM in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LEXM

genes like me logo Genes that share disorders with LEXM: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LEXM Gene

Publications for LEXM Gene

  1. T cell metabolism. The protein LEM promotes CD8⁺ T cell immunity through effects on mitochondrial respiration. (PMID: 25883318) Okoye I … Ashton-Rickardt PG (Science (New York, N.Y.) 2015) 2 4
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  3. Retraction. (PMID: 27980177) Sills J … Berg J (Science (New York, N.Y.) 2016) 4
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3
  5. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 4

Products for LEXM Gene

Sources for LEXM Gene