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CYTL1 Gene

protein-coding   GIFtS: 45
GCID: GC04M005016

Cytokine-Like 1

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Cytokine-Like 11 2
C4orf42 3
C172 5
Cytokine-Like Protein 12
Cytokine-Like Protein C172
Protein C173

External Ids:    HGNC: 244351   Entrez Gene: 543602   Ensembl: ENSG000001708917   OMIM: 6079305   UniProtKB: Q9NRR13   

Export aliases for CYTL1 gene to outside databases

Previous GC identifer: GC04M005135


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CYTL1 Gene:
C17 is a cytokine-like protein specifically expressed in bone marrow and cord blood mononuclear cells that bear
the CD34 (MIM 142230) surface marker (Liu et al., 2000 (PubMed 10857752)).(supplied by OMIM, Mar 2008)

GeneCards Summary for CYTL1 Gene:
CYTL1 (cytokine-like 1) is a protein-coding gene. GO annotations related to this gene include receptor binding.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000004.11  NC_018915.2  NT_006051.19  
Regulatory elements:
   Regulatory transcription factor binding sites in the CYTL1 gene promoter:
         GR   p53   GR-beta   NRSF form 1   IRF-1   NRSF form 2   HNF-4alpha1   AREB6   Sox9   GR-alpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCYTL1 promoter sequence
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CYTL1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 4p16-p15   Ensembl cytogenetic band:  4p16.2   HGNC cytogenetic band: 4p16-p15

CYTL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CYTL1 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M005016:  view genomic region     (about GC identifiers)

Start:
5,016,313 bp from pter      End:
5,021,199 bp from pter
Size:
4,887 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: CYTL1_HUMAN, Q9NRR1 (See protein sequence)
Recommended Name: Cytokine-like protein 1 precursor  
Size: 136 amino acids; 15577 Da

Explore the universe of human proteins at neXtProt for CYTL1: NX_Q9NRR1

Explore proteomics data for CYTL1 at MOPED


See CYTL1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_061129.1  
ENSEMBL proteins: 
 ENSP00000303550   ENSP00000425397   ENSP00000421743  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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ProtoNet protein and cluster: Q9NRR1


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005102receptor binding TAS10857752
     
Find genes that share ontologies with CYTL1           About GenesLikeMe


Phenotypes:
     5 MGI mutant phenotypes (inferred from 1 allele(MGI details for Cytl1):
 cardiovascular system  growth/size/body  immune system  respiratory system  skeleton 

Find genes that share phenotypes with CYTL1           About GenesLikeMe

Animal Models:
     MGI mouse knock-out Cytl1tm1Chun for CYTL1

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miRNA
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hsa-miR-657
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
CYTL1_HUMAN, Q9NRR1: Secreted
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
extracellular5
cytosol1
lysosome1
mitochondrion1

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005615extracellular space TAS10857752

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(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CYTL1
Interactions:

    Search GeneGlobe Interaction Network for CYTL1

Gene Ontology (GO): Selected biological process terms (see all 7):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0002062chondrocyte differentiation IEA--
GO:0007165signal transduction TAS10857752
GO:0045944positive regulation of transcription from RNA polymerase II promoter IEA--
GO:0048839inner ear development IEA--
GO:0050650chondroitin sulfate proteoglycan biosynthetic process IEA--

Find genes that share ontologies with CYTL1           About GenesLikeMe



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Tocris compounds for CYTL1



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for CYTL1 gene: 
NM_018659.2  

Unigene Cluster for CYTL1:

Cytokine-like 1
Hs.13872  [show with all ESTs]
Unigene Representative Sequence: BC031391
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000307746(uc003gig.3) ENST00000506508 ENST00000509419
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Inhib. RNA
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Additional mRNA sequence: 

AF193766.1 AF274956.1 AY359101.1 BC031391.1 

2 DOTS entries:

DT.411938  DT.95349397 

Selected AceView cDNA sequences (see all 83):

CR602076 CR620065 BQ182477 AI127309 AL550225 AA233071 BU624889 BG897954 
CB054753 AA448648 BQ183891 CD677388 AI742654 BG900828 BQ183907 BQ045035 
NM_018659 AY359101 BI764244 BF477408 BQ773859 AF193766 BC031391 BX107819 

GeneLoc Exon Structure

2 Alternative Splicing Database (ASD) splice patterns (SP) for CYTL1    About this scheme

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


ECgene alternative splicing isoforms for CYTL1

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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CYTL1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
CYTL1 Expression
About this image


CYTL1 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 12) fully expand
 
 Bone (Muscoskeletal System)    fully expand to see all 13 entries
         Mesenchymal Condensate Cells Zeugopod
         Endochondral Facial Bones
         Chondrocyte-like cells
 
 Cartilage (Muscoskeletal System)    fully expand to see all 8 entries
         Mesenchymal Condensate Cells Zeugopod
         Meckel's Cartilage
         Chondrocyte-like cells
 
 Lung (Respiratory System)    fully expand to see all 3 entries
         Chondrocytes Tracheal Cartilage
         Tracheal Cartilage
         Alveolar type II cells
 
 Limb (Muscoskeletal System)    fully expand to see all 3 entries
         Mesenchymal Condensate Cells Zeugopod
         Pelvic Girdle
 
 Neural Crest (Gastrulation Derivatives)    fully expand to see all 2 entries
         PureStem 7PEND24, NCr-fac & Meso-prx Progenitor
CYTL1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

CYTL1 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.13872

UniProtKB/Swiss-Prot: CYTL1_HUMAN, Q9NRR1
Tissue specificity: Specifically expressed in CD34+ hematopoietic cells

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In Situ
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of chordates.

Orthologs for CYTL1 gene from Selected species (see all 10)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Cytl11 , 5 cytokine-like 11, 5 76.99(n)1
76.11(a)1
  5 (20.21 cM)5
2311621  NM_001081106.11  NP_001074575.11 
 377355195 
chicken
(Gallus gallus)
Aves CYTL11 cytokine-like 1 68.89(n)
68.57(a)
  422849  XM_420795.3  XP_420795.1 
tropical clawed frog
(Xenopus tropicalis)
Amphibia cytl11 cytokine-like 1 59.68(n)
55.24(a)
  100494235  XM_002939045.2  XP_002939091.1 
zebrafish
(Danio rerio)
Actinopterygii CABZ01024686.16
Uncharacterized protein
25(a)
1 ↔ 1
21(41275648-41281649) ENSDARG00000089216


ENSEMBL Gene Tree for CYTL1 (if available)
TreeFam Gene Tree for CYTL1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for CYTL1 (see all 217)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 4 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1499098401,2
--4993586(+) TTGTTC/GGGTTC 1 -- int10--------
rs1908122621,2
C--4993642(+) GGCCAC/TGCTGG 1 -- int10--------
rs1449284511,2
C--4993760(+) CCTTCC/TGTGCC 1 -- int10--------
rs1490546101,2
--4993772(+) ATCTCC/TGGGTT 1 -- int10--------
rs1825020951,2
--4993816(+) AAGTGC/GAGCAA 1 -- int10--------
rs1448290431,2
--4993851(+) ATCTGC/GTCCCA 1 -- int10--------
rs68188201,2
C,F,H--4993865(+) TATATC/ATCCAA 1 -- int125Minor allele frequency- A:0.17NS EA NA WA CSA 2159
rs1873231711,2
--4993961(+) GAGACA/TCTTGA 1 -- int10--------
rs1426903271,2
C--4993977(+) ACTGA-/AAGAAGGA 1 -- int10--------
rs1162633661,2
F--4994004(+) GCTTAG/CAGCAG 1 -- int11Minor allele frequency- C:0.01WA 118

HapMap Linkage Disequilibrium report for CYTL1 (5016313 - 5021199 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for CYTL1:    About this table    
Variant IDTypeSubtypePubMed ID
esv34196OTHER Inversion12058347

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing CYTL1
DNA2.0 Custom Variant and Variant Library Synthesis for CYTL1

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 607930    OMIM disorders: --


Find genes that share disorders with CYTL1           About GenesLikeMe


Export disorders for CYTL1 gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for CYTL1 gene, integrated from 10 sources (see all 15):
(articles sorted by number of sources associating them with CYTL1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Molecular cloning and chromosomal mapping of a candidate cytokine gene selectively expressed in human CD34+ cells. (PubMed id 10857752)1, 2, 3 Liu X.... Cheng L. (Genomics 2000)
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  3. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)1, 2 Zhang Z. and Henzel W.J. (Protein Sci. 2004)
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (Genome Res. 2003)
  5. ANKRD7 and CYTL1 are novel risk genes for alcohol drinking behavior. (PubMed id 22613542)1 Chen X.D....Deng H.W. (Chin. Med. J. 2012)
  6. Genome-wide analysis of DNA methylation and the gene expression change in lung cancer. (PubMed id 22011669)1 Kwon Y.J....Park J.H. (J Thorac Oncol 2012)
  7. Cytokine-like 1 is involved in the growth and metastasis of neuroblastoma cells. (PubMed id 22797702)1 Wen M....An Y. (Int. J. Oncol. 2012)
  8. Identification of CCR2-binding features in Cytl1 by a CCL2-like chemokine model. (PubMed id 21322034)1 Tomczak A. and Pisabarro M.T. (Proteins 2011)
  9. [Study on the mechanism of C17orf62 induced cell death]. (PubMed id 21503106)1 Deng X....Shi T.P. (Beijing Da Xue Xue Bao 2011)
  10. C17 prevents inflammatory arthritis and associated joint destruction in mice. (PubMed id 21799806)1 Chao C....Pflanz S. (PLoS ONE 2011)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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, Kegg, and/or H-InvDB)
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Entrez Gene: 54360 HGNC: 24435 AceView: C17 Ensembl:ENSG00000170891 euGenes: HUgn54360
ECgene: CYTL1 H-InvDB: CYTL1

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for CYTL1 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for CYTL1 gene:
Search GeneIP for patents involving CYTL1

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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 Custom PCR Arrays for CYTL1 Search Chromatin IP Primers for CYTL1
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 GenScript Custom Purified and Recombinant Proteins Services for CYTL1 GenScript cDNA clones with any tag delivered in your preferred vector for CYTL1
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 Search Tocris compounds for CYTL1
 Browse Sino Biological Proteins
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 Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

 Novus Tissue Slides
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 See all of Abcam's Antibodies, Kits and Proteins for CYTL1
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 Browse ESI BIO Cell Lines and PureStem Progenitors for CYTL1
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 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CYTL1
 SwitchGear 3'UTR luciferase reporter plasmids for CYTL1
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 Search ThermoFisher Antibodies for CYTL1
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CYTL1
 Browse compounds at ApexBio
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  eBioscience FlowRNA Probe Sets
 genOway: Develop your customized and physiologically relevant rodent model for CYTL1
 antibodies-online antibodies for CYTL1 (13 products)
 antibodies-online kits for CYTL1 (2 products)
  Search antibodies-online for peptides for CYTL1
 antibodies-online proteins for CYTL1 (4 products)
       
GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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