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LYL1 Gene

protein-coding   GIFtS: 59

GC19M013070
lymphoblastic leukemia derived sequence 1
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
bHLHa18 1, 2
Descriptions
Lymphoblastic leukemia-derived sequence 1 3
lymphoblastic leukemia derived sequence 1 2
External Ids
HGNC: 67341
Entrez Gene: 40662
UniProtKB: P129803
Ensembl: ENSG000001049037
Search outside databases for aliases for LYL1 gene

Previous GC identifers: GC19M013542 GC19M013055

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Gene Wiki entry for LYL1
(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the LYL1 gene  

Entrez Gene cytogenetic band: 19p13.2   Ensembl cytogenetic band:  19p13.13   HGNC cytogenetic band: 19p13.2

LYL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M013070:     (about GC identifiers)

Start:
13,070,847 bp from pter
End:
13,074,681 bp from pter
Size:
3,835 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000019.8  NT_011295.10  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: LYL1_HUMAN, P12980 (See protein sequence)
Recommended Name: Protein lyl-1  
Size: 280 amino acids; 29938 Da
Subunit: Efficient DNA binding requires dimerization with another bHLH protein
Subcellular location: Nucleus (Potential)
Secondary accessions: O76102

REFSEQ proteins: NP_005574.2  

ENSEMBL proteins: 
ENSP00000264824 


Human Recombinant Proteins 
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Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (Lyl1)
Human Recombinant Proteins from Abnova (LYL1)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

1 Gene Ontology (GO) cellular component term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005634 nucleus IEA--
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Antibodies for LYL1: 
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Sigma-Aldrich Antibodies for LYL1
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Antibodies from Abcam (Lyl1), each with their AbpromiseSM
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Novus Biologicals Antibody for LYL1

Assays for LYL1: 
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Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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2 InterPro domains/families:
 IPR001092 HLH_basic
 IPR011598 HLH_DNA_bd


   GeneDecks  LYL1 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P12980

ProtoNet protein and cluster: P12980

1 Blocks protein family: IPB001092 Basic helix-loop-helix dimerization domain bHLH

UniProtKB/Swiss-Prot: LYL1_HUMAN, P12980
Similarity: Contains 1 basic helix-loop-helix (bHLH) domain

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (LYL1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (LYL1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005583

              Applied Biosystems Silencer® siRNAs for LYL1

              Sigma-Aldrich siRNA for LYL1  
                     Sigma-Aldrich shRNA for LYL1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for LYL1
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_005583
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_005583
                                 untagged cDNA clone in CMV expression vector: NM_005583 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_005583

Genatlas biochemistry entry for LYL1:
DNA binding protein with helix loop helix motif,rearranged in T-ALL leukemia,with translocation
t(7;19)

2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Lyl1):

hematopoietic systemimmune system

2 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0003677 DNA binding TAS2752424
GO:0030528 transcription regulator activity IEA--
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(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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 Gene Network CentralTM Interacting Genes and Proteins Network for  LYL1 


5/10 Interacting proteins for LYL1 (ENSP000002648243) via UniProtKB, MINT, and/or STRING (see all 10 )
InteractantInteraction Details
GeneCardExternal ID(s)
LMO2ENSP000002578183STRING (score=.985)
LMO1ENSP000003382073STRING (score=.982)
TCF3ENSP000002629653STRING (score=.947)
TLX3ENSP000002969213STRING (score=.923)
TLX1ENSP000003592153STRING (score=.895)
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1 Gene Ontology (GO) biological process term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006355 regulation of transcription, DNA-dependent IEA--
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for LYL1

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (LYL1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (LYL1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005583

              Sigma-Aldrich siRNA for LYL1  
                     Sigma-Aldrich shRNA for LYL1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_005583  

REFSEQ mRNAs for LYL1 gene: 

NM_005583.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_005583  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_005583
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_005583
                                 untagged cDNA clone in CMV expression vector: NM_005583 

Additional cDNA sequence: 

AK311530.1 BC002796.2 CR608162.1 CR626486.1 M22637.1 

3 DOTS entries:

DT.309710  DT.97835149  DT.121482618 

24/70 AceView cDNA sequences (see all 70 ):

BM971554 NM_005583 BC002796 BU727952 AI184953 CR608162 CR626486 R09896 
BU689243 BM974651 CA444958 BM920603 BM971064 AI249440 BP367249 BV184268 
BX381401 BX353347 AW295148 BU689329 BI826659 AI807496 BG757146 AI003632 

highest scoring ESTs for LYL1:

BC002796 BE396707 BE559551 BG686145 BG686687 BI838018 BI908195 BI908347 BI911873 BQ643386 

Unigene Cluster for LYL1:

Lymphoblastic leukemia derived sequence 1
Hs.46446  [show with all ESTs]
Unigene Representative Sequence: BM924781


GeneLoc Exon Structure

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

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

About this scheme

ECgene alternative splicing isoforms for LYL1

1 Ensembl transcript including schematic representation:
ENST00000264824  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

LYL1 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for LYL1

1 / 2 / 3

3 probe-sets matching LYL1 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
39971_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 M22637 0.80 1.00 0.91 1

210044_s_at2, 3 U133-A 1 1.00 1.00 -- -- BC002796 0.80 1.00 0.91 1

210044_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  LYL1 for binary patterns associated with the probe-sets selected above  
About GeneDecksing
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Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: GCAGAGCAGT

SOURCE GeneReport for Unigene cluster: Hs.46446

Expression variation in blood from EXPOLDB for LYL1

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for LYL1 gene from 4 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
cow
(Bos taurus)
LYL11   -- lymphoblastic leukemia derived sequence 1 87.26(n)
86.79(a)
615458  XM_867268.2  XP_872361.2 
rat
(Rattus norvegicus)
Lyl11   -- lymphoblastic leukemia derived sequence 1 81.53(n)
80.58(a)
304663  NM_001007677.1  NP_001007678.1 
mouse
(Mus musculus)
Lyl11, 5 8 (38.50 cM)5
lymphoblastomic leukemia 11, 5 79.86(n)1
78.42(a)1
170951  NM_008535.21  NP_032561.21 
 AA0155765  AK0761145  (see all 11)
zebrafish
(Danio rerio)
LOC1000047011   -- similar to Protein lyl-1 (Lymphoblastic leukemia-derived more 61.36(n)
56.82(a)
100004701  XM_001921787.1  XP_001921822.1 
About this table        Species with no ortholog for LYL1

ENSEMBL Gene Tree for LYL1
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for LYL1 gene
NHLH12  TAL12  NHLH22  TAL22  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
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10/23 NCBI SNPs in LYL1 are shown (see all 23 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 28)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 19 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs11222331,2
C,F,H13074516(+) TCGGAA/GGGCCA 1 -- ut51 ese31Minor allele frequency- G:0.04EU 114
rs72464041,2
F,H13075132(+) GTGGGG/TCACCC 1 -- ng314Minor allele frequency- T:0.01EU EA WA 414
rs11222341,2
C13074538(+) GTCTCC/TGCGTA 1 -- ut51 ese30--------
--
rs99414521,2
A13074967(+) CTTTGA/CACACT 1 -- ng310--------
--
rs10033911,2
C,F,H13073124(+) ggaggG/Agagga 1 -- int1 trp34Minor allele frequency- A:0.06EU EA WA 408
rs121512481,2
C,F,H13073025(+) GAAGGC/TAGCCA 1 -- int15Minor allele frequency- T:0.05EU EA WA 540
--
rs10033921,2
A,C13073128(+) gggagA/GagTTT 1 -- int1 trp30--------
--
rs129755951,2
--13071320(+) CGGGAA/GGGGTG 1 P/L mis1 ese30--------
--
rs58271811,2
--13076035(+) aaaaa-/ATTAAG 1 -- ng31 tfbs3 trp30--------
--
rs668020901,2
--13075637(-) TGGGC-/GGGGGG 1 -- ng310--------
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HapMap Linkage Disequilibrium images for LYL1 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
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OMIM: 151440

UniProtKB/Swiss-Prot: LYL1_HUMAN, P12980

  • 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
  • 3 Novoseek disease relationships for LYL1 gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    t-all 83.92 7 10023675 (2), 8142619 (1), 7734349 (1), 14604958 (1)
    acute leukemia 58.99 1 8142619 (1)
    leukemia 36.40 1 18160048 (1)
    About this table

    Genatlas disease: LYL1
    acute lymphoblastic leukemia (T-ALL) with translocation t(7;19)(q35;p13)

    Tumor Gene Database: LYL1

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/18 PubMed articles for LYL1 gene (see all 18 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 4066 HGNC: 6734 AceView: LYL1 Ensembl:ENSG00000104903 euGenes: HUgn4066
    ECgene: LYL1 H-InvDB: LYL1
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

    NameDescription
    ATLAS Chromosomes in Cancer entry for LYL1 Genetics and Cytogenetics in Oncology and Haematology
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for LYL1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Millipore Custom Antibody & Bulk Services
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     Millipore Immunoassay Services
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     Predesigned and custom siRNAs for LYL1 Antibodies for LYL1
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for LYL1 Browse small molecules at Sigma-Aldrich
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     Antibodies for LYL1

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