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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
  • Lymphoblastic Leukemia Derived Sequence 1 2 3
  • Class A Basic Helix-Loop-Helix Protein 18 3 4
  • BHLHa18 3 4
  • Lymphoblastic Leukemia-Derived Sequence 1 4
  • Protein Lyl-1 3

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 Transcriptional misregulation in cancer. GO annotations related to this gene include protein dimerization activity. An important paralog of this gene is TAL1.

Gene Wiki entry for LYL1 Gene

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

Genomics for LYL1 Gene

Regulatory Elements for LYL1 Gene

Enhancers for LYL1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F013076 1.3 FANTOM5 Ensembl ENCODE 29.7 +24.7 24689 4.5 HDGF ATF1 CREB3L1 YY1 GLIS2 GATA2 KLF7 ZNF263 REST CREB3 LYL1 KLF1 ENSG00000268945 WDR83 PRDX2 STX10 ZNF490 ENSG00000279044 ENSG00000267610
GH19F013068 0.9 Ensembl ENCODE 25.1 +33.3 33324 3.3 ATF1 PKNOX1 ARNT CREB3L1 YY1 ELK1 GATA2 NCOA1 TBX21 KAT8 LYL1 TRMT1 NACC1 ZNF625 ENSG00000242615 IER2 STX10 ZNF490 ZNF136 ENSG00000267610
GH19F013089 1.2 ENCODE 15.4 +5.4 5430 17.3 HDGF PKNOX1 ARNT CREB3L1 SIN3A ARID4B ZNF2 ZNF207 ZNF143 FOS ZNF709 LYL1 ENSG00000242615 ZNF625 TRMT1 ZNF136 NANOS3 MIR24-2 RPS6P25 WDR83
GH19F013062 0.8 ENCODE 12.8 +39.2 39223 2.9 ZNF121 ZNF316 ZNF362 ZBTB33 ZNF600 PRDM1 ZNF18 EGR2 LYL1 TRMT1 NACC1 CALR ENSG00000267610 PIR45233
GH19F013050 2 VISTA FANTOM5 Ensembl ENCODE 12.8 +46.9 46884 12.1 MLX ZFP64 FEZF1 DMAP1 YY1 ZNF143 ZNF263 SP3 NFYC SSRP1 LYL1 NACC1 TRMT1 MAST1 MIR24-2 RNASEH2A STX10 CALR GCDH ENSG00000267610
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LYL1 on UCSC Golden Path with GeneCards custom track

Promoters for LYL1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001816173 861 2201 HDGF SIN3A ARID4B ZNF143 ZNF207 KLF13 ZNF263 SP5 REST TBX21
ENSR00000215125 -1939 1001 HDGF HDAC1 ATF1 RAD21 ZBTB40 RARA EGR1 ZNF143 ETV6 FOS

Genomic Location for LYL1 Gene

13,097,188 bp from pter
13,103,161 bp from pter
5,974 bases
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:
    Recommended name:
    Protein lyl-1
    Protein Accession:
    Secondary Accessions:
    • O76102

    Protein attributes for LYL1 Gene

    280 amino acids
    Molecular mass:
    29938 Da
    Quaternary structure:
    • Efficient DNA binding requires dimerization with another bHLH protein.
    • 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

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



  • Contains 1 bHLH (basic helix-loop-helix) domain.
  • Contains 1 bHLH (basic helix-loop-helix) domain.
genes like me logo Genes that share domains with LYL1: view

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)

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 --
GO:0003677 DNA binding IEA,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

Human Phenotype Ontology for LYL1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for LYL1 Gene

MGI Knock Outs for LYL1:

Animal Model Products

miRNA for LYL1 Gene

miRTarBase miRNAs that target LYL1

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , 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

Jensen Localization Image for LYL1 Gene COMPARTMENTS Subcellular localization image for LYL1 gene
Compartment Confidence
nucleus 5
cytosol 2

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 KEGG pathway for LYL1 Gene

SIGNOR curated interactions for LYL1 Gene


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 from RNA polymerase II promoter IEA --
GO:0030183 B cell differentiation ISS --
genes like me logo Genes that share ontologies with LYL1: view

Transcripts for LYL1 Gene

Unigene Clusters for LYL1 Gene

Lymphoblastic leukemia derived sequence 1:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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

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

Relevant External Links for LYL1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LYL1 Gene

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


SOURCE GeneReport for Unigene cluster for LYL1 Gene:

genes like me logo Genes that share expression patterns with LYL1: view

Primer Products

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
(Pan troglodytes)
Mammalia LYL1 35
  • 98 (a)
(Bos Taurus)
Mammalia LYL1 34 35
  • 87.26 (n)
(Canis familiaris)
Mammalia LYL1 35
  • 83 (a)
(Rattus norvegicus)
Mammalia Lyl1 34
  • 81.53 (n)
(Mus musculus)
Mammalia Lyl1 34 16 35
  • 79.86 (n)
(Ornithorhynchus anatinus)
Mammalia LYL1 35
  • 62 (a)
(Monodelphis domestica)
Mammalia LYL1 35
  • 56 (a)
(Anolis carolinensis)
Reptilia -- 35
  • 50 (a)
(Danio rerio)
Actinopterygii LOC100333113 34
  • 66.25 (n)
CABZ01066695.1 35
  • 33 (a)
fruit fly
(Drosophila melanogaster)
Insecta HLH3B 35
  • 21 (a)
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

Gene Tree for LYL1 (if available)
Gene Tree for LYL1 (if available)

Paralogs for LYL1 Gene

Paralogs for LYL1 Gene

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

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 Sequence Context AA Info Type
rs1003391 -- 13,101,310(+) ggagg(A/G)gagga intron-variant
rs1003392 -- 13,101,314(+) gggag(A/G)agTTT intron-variant
rs1003393 -- 13,101,400(+) GGAGG(C/T)GCCCC intron-variant
rs1047789 -- 13,099,459(-) ACGGC(C/G)CCCGC reference, missense
rs111569631 -- 13,104,473(+) TGGTC(C/T)GGAGC intron-variant, nc-transcript-variant, downstream-variant-500B, upstream-variant-2KB

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)

Relevant External Links for LYL1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

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
  • leukemia, lymphoid
leukemia, acute lymphoblastic
  • leukemia, t-cell acute lymphocytic, somatic
- elite association - COSMIC cancer census association via MalaCards
Search LYL1 in MalaCards View complete list of genes associated with diseases


  • 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)

Relevant External Links for LYL1

Tumor Gene Database (TGDB):
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 J.D. … Cleary M.L. (Cell 1989) 2 3 4 64
  2. Multiple mechanisms induce ectopic expression of LYL1 in subsets of T-ALL cell lines. (PMID: 19608273) Nagel S. … MacLeod R.A. (Leuk. Res. 2010) 3 22 64
  3. Lyl1 interacts with CREB1 and alters expression of CREB1 target genes. (PMID: 18160048) San-Marina S. … Minden M.D. (Biochim. Biophys. Acta 2008) 3 22 64
  4. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J. … Lucas S.M. (Nature 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for LYL1 Gene

Sources for LYL1 Gene

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