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Aliases for LYL1 Gene

Aliases for LYL1 Gene

  • LYL1, Basic Helix-Loop-Helix Family Member 2 3 5
  • Lymphoblastic Leukemia Associated Hematopoiesis Regulator 1 2 3
  • Class A Basic Helix-Loop-Helix Protein 18 3 4
  • Lymphoblastic Leukemia Derived Sequence 1 2 3
  • BHLHa18 3 4
  • Lymphoblastic Leukemia-Derived Sequence 1 4
  • Protein Lyl-1 3
  • BHLHA18 4

External Ids for LYL1 Gene

Previous GeneCards Identifiers for LYL1 Gene

  • GC19M013542
  • GC19M013055
  • GC19M013070
  • GC19M013209
  • GC19M012782

Summaries for LYL1 Gene

Entrez Gene Summary for LYL1 Gene

  • This gene represents a basic helix-loop-helix transcription factor. The encoded protein may play roles in blood vessel maturation and hematopoeisis. A translocation between this locus and the T cell receptor beta locus (GeneID 6957) on chromosome 7 has been associated with acute lymphoblastic leukemia. [provided by RefSeq, Sep 2010]

GeneCards Summary for LYL1 Gene

LYL1 (LYL1, Basic Helix-Loop-Helix Family Member) is a Protein Coding gene. Diseases associated with LYL1 include Lymphoblastic Leukemia and Leukemia. Among its related pathways are Hematopoietic Stem Cell Differentiation and Transcriptional misregulation in cancer. Gene Ontology (GO) annotations related to this gene include protein dimerization activity. An important paralog of this gene is TAL1.

Gene Wiki entry for LYL1 Gene

Additional gene information for LYL1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LYL1 Gene

Genomics for LYL1 Gene

GeneHancer (GH) Regulatory Elements for LYL1 Gene

Promoters and enhancers for LYL1 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
GH19J013089 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 655.2 +5.4 5430 17.3 IRF4 E2F8 ZNF143 MEF2D GLIS1 NBN NR2C1 KDM1A WT1 SP7 LYL1 PIR62376 ZNF136 CCDC130 TRMT1 ZNF564 ZNF799 ZNF442 ZNF44 ZNF791
GH19J013011 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 12 +83.0 82966 17.2 HDGF FOXA2 MLX ARNT ARID4B FEZF1 DMAP1 ZNF2 YY1 ZNF213 NFIX ZNF136 TRMT1 CCDC130 ZNF791 ZNF709 MRI1 ZNF564 ZNF44 ZNF625
GH19J013076 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 19.8 +24.7 24688 4.5 HDGF ATF1 ARNT TCF12 ZNF766 GLIS2 KLF7 ATF7 ZNF592 ATF4 LYL1 KLF1 PRDX2 STX10 ZNF490 ENSG00000279044 ENSG00000267610 NFIX
GH19J013050 Enhancer 2.1 VISTA FANTOM5 Ensembl ENCODE dbSUPER 12.8 +46.9 46883 12.1 CLOCK FOXA2 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 LYL1 TRMT1 NACC1 MAST1 STX10 CALR GCDH ENSG00000267610 PIR45233 NFIX
GH19J013030 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 12 +68.7 68735 8.2 PKNOX1 FOXA2 ARID4B SIN3A FEZF1 ZNF2 YY1 ZNF143 KLF13 SP3 TRMT1 ZNF844 ZNF791 ZNF442 ZNF136 ZNF625 MRI1 RPS6P25 STX10 ZNF433
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LYL1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LYL1 gene promoter:
  • GATA-1
  • ER-alpha
  • Pax-4a
  • Sox9
  • AREB6
  • HTF
  • ATF
  • SREBP-1b
  • c-Myb

Genomic Locations for LYL1 Gene

Genomic Locations for LYL1 Gene
chr19:13,097,188-13,103,161
(GRCh38/hg38)
Size:
5,974 bases
Orientation:
Minus strand
chr19:13,209,842-13,213,975
(GRCh37/hg19)
Size:
4,134 bases
Orientation:
Minus strand

Genomic View for LYL1 Gene

Genes around LYL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LYL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LYL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LYL1 Gene

Proteins for LYL1 Gene

  • Protein details for LYL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P12980-LYL1_HUMAN
    Recommended name:
    Protein lyl-1
    Protein Accession:
    P12980
    Secondary Accessions:
    • O76102

    Protein attributes for LYL1 Gene

    Size:
    280 amino acids
    Molecular mass:
    29938 Da
    Quaternary structure:
    • Efficient DNA binding requires dimerization with another bHLH protein.
    SequenceCaution:
    • Sequence=AAA88084.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAA88085.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAA92488.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for LYL1 Gene

Post-translational modifications for LYL1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LYL1 Gene

No data available for DME Specific Peptides for LYL1 Gene

Domains & Families for LYL1 Gene

Gene Families for LYL1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Disease related genes
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for LYL1 Gene

Suggested Antigen Peptide Sequences for LYL1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LYL1: view

No data available for UniProtKB/Swiss-Prot for LYL1 Gene

Function for LYL1 Gene

Molecular function for LYL1 Gene

GENATLAS Biochemistry:
DNA binding protein with helix loop helix motif,rearranged in T-ALL leukemia,with translocation t(7;19)

Phenotypes From GWAS Catalog for LYL1 Gene

Gene Ontology (GO) - Molecular Function for LYL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IBA --
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding IBA,NAS 19274049
GO:0003677 DNA binding TAS,IDA 18160048
GO:0005515 protein binding IPI 10023675
GO:0046983 protein dimerization activity IEA --
genes like me logo Genes that share ontologies with LYL1: view

Phenotypes for LYL1 Gene

genes like me logo Genes that share phenotypes with LYL1: view

Animal Models for LYL1 Gene

MGI Knock Outs for LYL1:

Animal Model Products

CRISPR Products

miRNA for LYL1 Gene

miRTarBase miRNAs that target LYL1

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LYL1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LYL1 Gene

Localization for LYL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LYL1 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 LYL1 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LYL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
genes like me logo Genes that share ontologies with LYL1: view

Pathways & Interactions for LYL1 Gene

genes like me logo Genes that share pathways with LYL1: view

Pathways by source for LYL1 Gene

1 BioSystems pathway for LYL1 Gene
1 KEGG pathway for LYL1 Gene

SIGNOR curated interactions for LYL1 Gene

Activates:

Gene Ontology (GO) - Biological Process for LYL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001955 blood vessel maturation IMP 20418284
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA,IDA 10023675
GO:0006357 regulation of transcription by RNA polymerase II IEA --
GO:0030183 B cell differentiation IEA,ISS --
genes like me logo Genes that share ontologies with LYL1: view

Drugs & Compounds for LYL1 Gene

No Compound Related Data Available

Transcripts for LYL1 Gene

mRNA/cDNA for LYL1 Gene

(3) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(70) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LYL1 Gene

Lymphoblastic leukemia derived sequence 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LYL1

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LYL1 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4
SP1:
SP2: -

Relevant External Links for LYL1 Gene

GeneLoc Exon Structure for
LYL1
ECgene alternative splicing isoforms for
LYL1

Expression for LYL1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LYL1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LYL1 Gene

This gene is overexpressed in Whole Blood (x25.0).

Protein differential expression in normal tissues from HIPED for LYL1 Gene

This gene is overexpressed in Adipocyte (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LYL1 Gene



Protein tissue co-expression partners for LYL1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LYL1 Gene:

LYL1

SOURCE GeneReport for Unigene cluster for LYL1 Gene:

Hs.46446

Evidence on tissue expression from TISSUES for LYL1 Gene

  • Muscle(2.4)
  • Nervous system(2.1)

Phenotype-based relationships between genes and organs from Gene ORGANizer for LYL1 Gene

Germ Layers:
  • mesoderm
Systems:
  • immune
  • lymphatic
Regions:
General:
  • blood
  • bone marrow
  • white blood cell
genes like me logo Genes that share expression patterns with LYL1: view

No data available for mRNA Expression by UniProt/SwissProt for LYL1 Gene

Orthologs for LYL1 Gene

This gene was present in the common ancestor of animals.

Orthologs for LYL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LYL1 34
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LYL1 34 33
  • 87.26 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LYL1 34
  • 83 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lyl1 33
  • 81.53 (n)
mouse
(Mus musculus)
Mammalia Lyl1 16 34 33
  • 79.86 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LYL1 34
  • 62 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LYL1 34
  • 56 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 50 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii LOC100333113 33
  • 66.25 (n)
CABZ01066695.1 34
  • 33 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta HLH3B 34
  • 21 (a)
OneToMany
Species where no ortholog for LYL1 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)
  • chicken (Gallus gallus)
  • 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LYL1 Gene

ENSEMBL:
Gene Tree for LYL1 (if available)
TreeFam:
Gene Tree for LYL1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LYL1: view image

Paralogs for LYL1 Gene

Paralogs for LYL1 Gene

(3) SIMAP similar genes for LYL1 Gene using alignment to 2 proteins:

  • LYL1_HUMAN
  • K7ER61_HUMAN
genes like me logo Genes that share paralogs with LYL1: view

Variants for LYL1 Gene

Sequence variations from dbSNP and Humsavar for LYL1 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000184280 -- 13,103,088(-) C/T 5_prime_UTR_variant
rs1000344999 -- 13,100,443(-) G/T intron_variant
rs1000568060 -- 13,103,855(-) C/T upstream_transcript_variant
rs1000947147 -- 13,099,142(-) C/T 3_prime_UTR_variant
rs1001178320 -- 13,099,792(-) T/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LYL1 Gene

Variant ID Type Subtype PubMed ID
nsv578635 CNV loss 21841781
nsv828447 CNV gain 20364138

Variation tolerance for LYL1 Gene

Gene Damage Index Score: 2.62; 45.24% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LYL1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LYL1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LYL1 Gene

Disorders for LYL1 Gene

MalaCards: The human disease database

(3) MalaCards diseases for LYL1 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
lymphoblastic leukemia
  • acute lymphocytic leukemia
leukemia
precursor t-cell acute lymphoblastic leukemia
  • precursor t-cell acute lymphoblastic leukemia/lymphoma
- elite association - COSMIC cancer census association via MalaCards
Search LYL1 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

LYL1_HUMAN
  • Note=A chromosomal aberration involving LYL1 may be a cause of a form of T-cell acute lymphoblastic leukemia (T-ALL). Translocation t(7;19)(q35;p13) with TCRB.

Genatlas disease for LYL1 Gene

acute lymphoblastic leukemia (T-ALL) with translocation t(7;19)(q35;p13)

Additional Disease Information for LYL1

genes like me logo Genes that share disorders with LYL1: view

Publications for LYL1 Gene

  1. lyl-1, a novel gene altered by chromosomal translocation in T cell leukemia, codes for a protein with a helix-loop-helix DNA binding motif. (PMID: 2752424) Mellentin JD … Cleary ML (Cell 1989) 2 3 4 58
  2. Multiple mechanisms induce ectopic expression of LYL1 in subsets of T-ALL cell lines. (PMID: 19608273) Nagel S … MacLeod RA (Leukemia research 2010) 3 22 58
  3. Lyl1 interacts with CREB1 and alters expression of CREB1 target genes. (PMID: 18160048) San-Marina S … Minden MD (Biochimica et biophysica acta 2008) 3 22 58
  4. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 3 4 58
  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 58

Products for LYL1 Gene

Sources for LYL1 Gene

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