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LMO1 Gene

protein-coding   GIFtS: 60

GC11M008202
LIM domain only 1 (rhombotin 1)
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: RBTN1)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
MGC116692 2
RBTN1 2, 3, 5
RHOM1 1, 2, 3, 5
TTG1 1, 2, 3
Descriptions
Cysteine-rich protein TTG-1 3
LIM domain only 1 2
LIM domain only 1 (rhombotin 1) 2
LIM domain only protein 1 3
T-cell translocation protein 1 3
External Ids
HGNC: 66411
Entrez Gene: 40042
UniProtKB: P258003
Ensembl: ENSG000001664077
Search outside databases for aliases for LMO1 gene

Previous GC identifers: GC11M009030 GC11M008706 GC11M008204 GC11M008210

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for LMO1:
LMO1 enocdes a cysteine-rich, two LIM domain transcriptional regulator. It is mapped to an area of
consistent chromosomal translocation in chromosome 11, disrupting it in T-cell leukemia, although
more rarely than the related gene, LMO2 is disrupted. [provided by RefSeq]

UniProtKB/Swiss-Prot: RBTN1_HUMAN, P25800
Function: May be involved in gene regulation within neural lineage cells potentially by direct DNA
binding or by binding to other transcription factors

Gene Wiki entry for LMO1

(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 LMO1 gene  

Entrez Gene cytogenetic band: 11p15   Ensembl cytogenetic band:  11p15.4   HGNC cytogenetic band: 11p15

LMO1 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 11         GeneLoc Exon Structure

GeneLoc location for GC11M008202:     (about GC identifiers)

Start:
8,202,433 bp from pter
End:
8,241,982 bp from pter
Size:
39,550 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000011.8  NT_009237.17  
(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: RBTN1_HUMAN, P25800 (See protein sequence)
Recommended Name: Rhombotin-1  
Size: 156 amino acids; 17828 Da
Subcellular location: Nucleus (By similarity)
Secondary accessions: Q4VBC5

REFSEQ proteins: NP_002306.1  

ENSEMBL proteins: 
ENSP00000330089 ENSP00000338207 


Human Recombinant Proteins 
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Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (LMO1)
Human Recombinant Proteins from Abnova (LMO1)
                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 ISS--
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Antibodies for LMO1: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for LMO1
Browse R&D Systems for Antibodies
Antibodies from Abcam (LMO1), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (LMO1)
Novus Biologicals Antibodies for LMO1

Assays for LMO1: 
Browse Invitrogen for biochemical assays
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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1 InterPro domain/family:
 IPR001781 Znf_LIM


   GeneDecks  LMO1 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P25800

ProtoNet protein and cluster: P25800

1 Blocks protein family: IPB001781 Zn-binding protein

UniProtKB/Swiss-Prot: RBTN1_HUMAN, P25800
Similarity: Contains 2 LIM zinc-binding domains

(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 (LMO1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (LMO1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_002315

              Applied Biosystems Silencer® siRNAs for LMO1

              Sigma-Aldrich siRNA for LMO1  
                     Sigma-Aldrich shRNA for LMO1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for LMO1
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_002315
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_002315
                                 untagged cDNA clone in CMV expression vector: NM_002315 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_002315

UniProtKB/Swiss-Prot: RBTN1_HUMAN, P25800
Function: May be involved in gene regulation within neural lineage cells potentially by direct DNA
binding or by binding to other transcription factors

Genatlas biochemistry entry for LMO1:
LIM domain only 1,rhombotin 1,expressed in rhombomeres

2 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Lmo1):

lethality-postnatalnormal

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

GO IDQualified GO termEvidencePubMed IDs
GO:0003700 transcription factor activity TAS2303035
GO:0008270 zinc ion binding IEA--
GO:0046872 metal ion binding 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.)
About This Section


 Gene Network CentralTM Interacting Genes and Proteins Network for  LMO1 


5/12 Interacting proteins for LMO1 (ENSP000003382073) via UniProtKB, MINT, and/or STRING (see all 12 )
InteractantInteraction Details
GeneCardExternal ID(s)
TAL1ENSP000003609503STRING (score=.999)
LYL1ENSP000002648243STRING (score=.982)
TAL2ENSP000003345473STRING (score=.961)
LDB1ENSP000003546163STRING (score=.924)
GATA3ENSP000003686323STRING (score=.92)
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2 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0007275 multicellular organismal development TAS2303035
GO:0008283 cell proliferation TAS2303035
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 LMO1

(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 (LMO1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (LMO1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_002315

              Sigma-Aldrich siRNA for LMO1  
                     Sigma-Aldrich shRNA for LMO1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_002315  

REFSEQ mRNAs for LMO1 gene: 

NM_002315.1   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_002315  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_002315
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_002315
                                 untagged cDNA clone in CMV expression vector: NM_002315 

Additional cDNA sequence: 

BC039512.1 BC069673.1 BC069752.1 BC069793.1 BC096056.3 BC096057.3 BC096058.1 M26682.1 
X64244.1 X64245.1 X64246.1 X64247.1 

5 DOTS entries:

DT.101961410  DT.100695631  DT.100021771  DT.120734475  DT.402183 

24/38 AceView cDNA sequences (see all 38 ):

X64246 BE251811 CK819565 X64247 X64244 BF515153 BC039512 NM_002315 
BU552557 X64245 BM708021 BV191184 BC069752 BQ270703 BM894527 BC069793 
BV198185 BC069673 BM510258 BU781888 AI939565 BE327777 BM465945 BX100436 

highest scoring ESTs for LMO1:

BC039512 BC069673 BC069752 BC069793 BI710814 BM465945 BM510258 BM894527 BQ270703 BQ776432 

Unigene Cluster for LMO1:

LIM domain only 1 (rhombotin 1)
Hs.654426  [show with all ESTs]
Unigene Representative Sequence: M26682


GeneLoc Exon Structure

3 Alternative Splicing Database (ASD) splice patterns (SP) for LMO1

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c
SP1:        -     -                 -                     
SP2:                                -                     
SP3:                                                      

About this scheme

ECgene alternative splicing isoforms for LMO1

2 Ensembl transcripts including schematic representations:
ENST00000332914  ENST00000335790  
(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

LMO1 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for LMO1

1 / 2 / 3

4 probe-sets matching LMO1 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
35103_i_at2, 3 U95-A 1 1.00 1.00 0.96 0.74 M26682 0.80 1.00 0.91 1
35104_r_at2, 3 U95-A 1 1.00 1.00 0.88 1.29 M26682 0.80 1.00 0.91 1

206718_at2, 3 U133-A 1 1.00 1.00 -- -- NM_002315 0.60 1.00 0.82 1

206718_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  LMO1 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: ATCTTGTGTC

SOURCE GeneReport for Unigene cluster: Hs.654426

Expression variation in blood from EXPOLDB for LMO1

UniProtKB/Swiss-Prot: RBTN1_HUMAN, P25800
Tissue specificity: Expressed mainly in the central nervous. Low level of expression in other
tissues including thymus

(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 LMO1 gene from 5/11 species (see all 11 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
LMO11   -- LIM domain only 1 (rhombotin 1) 95.51(n)
100(a)
610473  XM_846106.1  XP_851199.1 
chimpanzee
(Pan troglodytes)
LMO11   -- LIM domain only 1 (rhombotin 1) 99.35(n)
99.35(a)
749084  XM_001165367.1  XP_001165367.1 
cow
(Bos taurus)
LMO11   -- LIM domain only 1 (rhombotin 1) 94.66(n)
98.08(a)
527152  NM_001075895.1  NP_001069363.1 
rat
(Rattus norvegicus)
Lmo11   -- LIM domain only 1 87.53(n)
92.9(a)
245979  NM_139112.1  NP_620812.1 
mouse
(Mus musculus)
Lmo11, 5 7 (51.50 cM)5
LIM domain only 11, 5 92.95(n)1
98.72(a)1
1095941  NM_057173.11  NP_476514.11 
 AJ2963045  AK1335865  (see all 10)
About this table        Species with no ortholog for LMO1

ENSEMBL Gene Tree for LMO1
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for LMO1 gene
LMO22  LMO32  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/340 NCBI SNPs in LMO1 are shown (see all 340 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 190)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 11 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
--
rs110418351,2
A,C,H8242622(+) GGCAGA/GAAAAG 1 -- ng31 trp34Minor allele frequency- G:0.00EU EA WA 414
rs20714581,2
C,F,H8241700(-) AATTCG/TGAGGC 1 -- ut515Minor allele frequency- T:0.30EA EU WA 1146
--
rs110418361,2
A,C8242623(+) GCAGGA/AC    
   
/C/GA
AAAGA
1 -- ng31 trp30--------
--
rs116052261,2
A,C8243020(+) CAGTGA/CTGGGA 1 -- ng310--------
--
rs116030241,2
A,C8242743(+) CATTCC/Tttttt 1 -- ng31 trp30--------
rs110418171,2
F,H8202122(+) GTCTGG/CGGTCT 1 -- ng514Minor allele frequency- C:0.01EU EA WA 406
--
rs110418341,2
A8242458(+) CAAGCA/CCAGGC 1 -- ng310--------
rs2049291,2
C8241571(-) CCCGAA/GGACCG 1 -- ut510--------
rs1760831,2
C8241557(-) GCCCCG/TCCAAA 1 -- ut511Minor allele frequency- T:0.00MN 184
rs37509521,2
A,C,F,H8208497(-) TGTGCC/GTGCTG 1 A/A syn1 ese318Minor allele frequency- G:0.26EA NA EU WA 2970
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HapMap Linkage Disequilibrium images for LMO1 (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: 186921

UniProtKB/Swiss-Prot: RBTN1_HUMAN, P25800

  • A chromosomal aberration involving LMO1 may be a cause of a form of T-cell acute
    lymphoblastic leukemia (T-ALL). Translocation t(11,14)(p15;q11) with TCRD
  • 5 Novoseek disease relationships for LMO1 gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    t-all 84.75 8 14582078 (1), 16778171 (1), 11243382 (1), 10373552 (1) (see all 7)
    exencephaly 72.38 1 14966285 (1)
    leukemia t-cell 64.64 3 14966285 (1), 16778171 (1), 15691703 (1)
    leukemia 48.78 2 9872335 (1), 14975618 (1)
    acute leukemia 34.46 5 9872335 (3), 1507224 (1)
    About this table

    Genatlas disease: LMO1
    acute lymphoblastic leukemia (T ALL),with translocation t(11;14)(p15;q11),and a LMO1/LDB1
    interaction,likely involved in tumorigenesis

    Tumor Gene Database: LMO1

    (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

    10/38 PubMed articles for LMO1 gene (see all 38 ):
    (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: 4004 HGNC: 6641 AceView: LMO1 Ensembl:ENSG00000166407 euGenes: HUgn4004
    ECgene: LMO1 H-InvDB: LMO1
    (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 LMO1 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 LMO1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for LMO1 Antibodies for LMO1
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for LMO1 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Recombinant & Natural Proteins  

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     Recombinant Proteins
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     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for LMO1

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