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SCYL1 Gene

protein-coding   GIFtS: 55
GCID: GC11P065292

SCY1-Like 1 (S. Cerevisiae)

(Previous name: N-terminal kinase-like)
(Previous symbol: NTKL)
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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
SCY1-Like 1 (S. Cerevisiae)1 2     TEIF2 3
NTKL1 2 3 5     TRAP2 3
Telomerase Regulation-Associated Protein1 2 3     SCY1-Like Protein 12 3
Teratoma-Associated Tyrosine Kinase1 2 3     N-Terminal Kinase-Like1
Telomerase Transcriptional Elements-Interacting Factor1 2     NKTL2
Coated Vesicle-Associated Kinase Of 90 KDa2 3     P1052
Telomerase Transcriptional Element-Interacting Factor2 3     Likely Ortholog Of Mouse N-Terminal Kinase-Like Protein2
GKLP2 3     N-Terminal Kinase-Like Protein2
TAPK2 3     CVAK903

External Ids:    HGNC: 143721   Entrez Gene: 574102   Ensembl: ENSG000001421867   OMIM: 6079825   UniProtKB: Q96KG93   

Export aliases for SCYL1 gene to outside databases

Previous GC identifers: GC11P066974 GC11P065542 GC11P065068 GC11P065069 GC11P065049 GC11P061619


(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 SCYL1 Gene:
This gene encodes a transcriptional regulator belonging to the SCY1-like family of kinase-like proteins. The
protein has a divergent N-terminal kinase domain that is thought to be catalytically inactive, and can bind
specific DNA sequences through its C-terminal domain. It activates transcription of the telomerase reverse
transcriptase and DNA polymerase beta genes. The protein has been localized to the nucleus, and also to the
cytoplasm and centrosomes during mitosis. Multiple transcript variants encoding different isoforms have been
found for this gene. (provided by RefSeq, Jul 2008)

GeneCards Summary for SCYL1 Gene:
SCYL1 (SCY1-like 1 (S. cerevisiae)) is a protein-coding gene. GO annotations related to this gene include protein tyrosine kinase activity.

UniProtKB/Swiss-Prot: NTKL_HUMAN, Q96KG9
Function: Regulates COPI-mediated retrograde traffic. Has no detectable kinase activity in vitro
Function: Isoform 6 acts as transcriptional activator. It binds to three different types of GC-rich DNA binding
sites (box-A, -B and -C) in the beta-polymerase promoter region. It also binds to the TERT promoter region

Gene Wiki entry for SCYL1 Gene


(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_000011.9  NT_167190.2  NC_018922.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SCYL1 gene promoter:
         ER-alpha   Pax-5   NF-kappaB   Meis-1b   Arnt   E47   c-Ets-1   NF-kappaB2   c-Myb   NF-kappaB1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSCYL1 promoter sequence
   Search Chromatin IP Primers for SCYL1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SCYL1


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

Entrez Gene cytogenetic band: 11q13   Ensembl cytogenetic band:  11q13.1   HGNC cytogenetic band: 11q11-q12

SCYL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SCYL1 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P065292:  view genomic region     (about GC identifiers)

Start:
65,292,548 bp from pter      End:
65,306,182 bp from pter
Size:
13,635 bases      Orientation:
plus 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: NTKL_HUMAN, Q96KG9 (See protein sequence)
Recommended Name: N-terminal kinase-like protein  
Size: 808 amino acids; 89631 Da
Subunit: Interacts with GORAB. Interacts with COPA, COPB1 and COPB2 (By similarity). Homooligomer. Interacts with
AP2B1
Sequence caution: Sequence=AAG09726.1; Type=Frameshift; Positions=289, 307; Sequence=AAG17902.1; Type=Frameshift;
Positions=Several;
Secondary accessions: A6NJF1 Q96G50 Q96KG8 Q96KH1 Q9HAW5 Q9HBL3 Q9NR53
Alternative splicing: 6 isoforms:  Q96KG9-1   Q96KG9-2   Q96KG9-3   Q96KG9-4   Q96KG9-5   Q96KG9-6   (Non-canonical splice junctions)

Explore the universe of human proteins at neXtProt for SCYL1: NX_Q96KG9

Explore proteomics data for SCYL1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SCYL1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001041683.1  NP_065731.3  

    ENSEMBL proteins: 
     ENSP00000270176   ENSP00000431635   ENSP00000408192   ENSP00000437254   ENSP00000432175  
     ENSP00000436993   ENSP00000431664   ENSP00000433604   ENSP00000279270  

    SCYL1 Human Recombinant Protein Products:

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    Novus Biologicals SCYL1 Protein
    Novus Biologicals SCYL1 Lysate
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    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for SCYL1 

     
    antibodies-online proteins for SCYL1 (2 products) 

     
    antibodies-online peptides for SCYL1

    SCYL1 Antibody Products:

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    antibodies-online antibodies for SCYL1 (2 products) 

    SCYL1 Assay Products:

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    antibodies-online kits for SCYL1 (8 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    IUPHAR Guide to PHARMACOLOGY protein family classification: SCY1-like 1 (S. cerevisiae)
    SCY1 family

    4 InterPro protein domains:
     IPR011989 ARM-like
     IPR011009 Kinase-like_dom
     IPR000719 Prot_kinase_dom
     IPR016024 ARM-type_fold

    Graphical View of Domain Structure for InterPro Entry Q96KG9

    ProtoNet protein and cluster: Q96KG9

    1 Blocks protein domain: IPB000357 HEAT repeat

    UniProtKB/Swiss-Prot: NTKL_HUMAN, Q96KG9
    Domain: The protein kinase domain is predicted to be catalytically inactive
    Similarity: Belongs to the protein kinase superfamily
    Similarity: Contains 3 HEAT repeats
    Similarity: Contains 1 protein kinase domain


    Find genes that share domains with SCYL1           About GenesLikeMe


    (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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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: NTKL_HUMAN, Q96KG9
    Function: Regulates COPI-mediated retrograde traffic. Has no detectable kinase activity in vitro
    Function: Isoform 6 acts as transcriptional activator. It binds to three different types of GC-rich DNA binding
    sites (box-A, -B and -C) in the beta-polymerase promoter region. It also binds to the TERT promoter region

         Gene Ontology (GO): Selected molecular function terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0004672protein kinase activity ----
    GO:0004713protein tyrosine kinase activity NAS10843802
    GO:0005488binding ----
    GO:0005515protein binding ----
         
    Find genes that share ontologies with SCYL1           About GenesLikeMe


    Phenotypes:
         5 GenomeRNAi human phenotypes for SCYL1:
     Decreased substrate adherent c  Decreased viability  Decreased viability with cispl  Increased number of small and  
     Paclitaxel antagonistic effect 

         11 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Scyl1):
     behavior/neurological  cardiovascular system  growth/size/body  hematopoietic system  immune system 
     mortality/aging  muscle  nervous system  reproductive system  skeleton 
     vision/eye 

    Find genes that share phenotypes with SCYL1           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Scyl1tm1.1Spel for SCYL1

       genOway: Develop your customized and physiologically relevant rodent model for SCYL1

    miRNA
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    miRTarBase miRNAs that target SCYL1:
    hsa-mir-30a-5p (MIRT028426), hsa-let-7b-5p (MIRT001596), hsa-let-7e-5p (MIRT051600), hsa-mir-484 (MIRT041975), hsa-mir-324-3p (MIRT043006)

    Block miRNA regulation of human, mouse, rat SCYL1 using miScript Target Protectors
    7 qRT-PCR Assays for microRNAs that regulate SCYL1:
    hsa-miR-338-5p hsa-miR-493* hsa-let-7g* hsa-miR-3920 hsa-miR-29a* hsa-miR-3121-3p hsa-let-7a-2*
    SwitchGear 3'UTR luciferase reporter plasmidSCYL1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat SCYL1

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    GenScript: all cDNA clones in your preferred vector (see all 2): SCYL1 (NM_001048218)
    Sino Biological Human cDNA Clone for SCYL1
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SCYL1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCYL1
    Addgene plasmids for SCYL1 

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCYL1


    (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
    NTKL_HUMAN, Q96KG9: Cytoplasm, cytoskeleton, microtubule organizing center, centrosome. Endoplasmic
    reticulum-Golgi intermediate compartment. Golgi apparatus, cis-Golgi network. Note=Localized to the Endoplasmic
    reticulum-Golgi intermediate and cis-Golgi in an ARF1-independent manner
    NTKL_HUMAN, Q96KG9: Isoform 1: Cytoplasm. Note=Cytoplasmic throughout the cell cycle
    NTKL_HUMAN, Q96KG9: Isoform 2: Cytoplasm. Note=Cytoplasmic throughout the cell cycle
    NTKL_HUMAN, Q96KG9: Isoform 3: Cytoplasm. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome.
    Note=Cytoplasmic during interphase and centrosomal during mitosis, it localizes to the centrosomes in a
    microtubule-independent manner
    NTKL_HUMAN, Q96KG9: Isoform 6: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytoskeleton5
    golgi apparatus5
    nucleus5
    cytosol3

    Gene Ontology (GO): Selected cellular component terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--
    GO:0005737cytoplasm ISS12783284
    GO:0005793endoplasmic reticulum-Golgi intermediate compartment IDA18556652
    GO:0005794Golgi apparatus IDA18556652
    GO:0005801cis-Golgi network IDA18556652

    Find genes that share ontologies with SCYL1           About GenesLikeMe


    (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 SCYL1
    Interactions:

        GeneGlobe Interaction Network for SCYL1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for SCYL1 (Q96KG92, 3 ENSP000002701764) via UniProtKB, MINT, STRING, and/or I2D (see all 92)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    COILP384322, 3, ENSP000002403164MINT-2875116 MINT-2875097 I2D: score=3 STRING: ENSP00000240316
    XPO7Q9UIA93, ENSP000004048534I2D: score=5 STRING: ENSP00000404853
    CD93Q9NPY33, ENSP000002460064I2D: score=2 STRING: ENSP00000246006
    XPOTO435923, ENSP000003278214I2D: score=2 STRING: ENSP00000327821
    ARCN1P484443, ENSP000002640284I2D: score=1 STRING: ENSP00000264028
    About this table

    Gene Ontology (GO): 5 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated IEA--
    GO:0006468protein phosphorylation ----
    GO:0006890retrograde vesicle-mediated transport, Golgi to ER IDA18556652
    GO:0018108peptidyl-tyrosine phosphorylation NAS10843802

    Find genes that share ontologies with SCYL1           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 Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SCYL1 (NTKL)

    2 Novoseek inferred chemical compound relationships for SCYL1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tyrosine 63.3 44 7594554 (3), 9849886 (2), 9850163 (2), 8871662 (1) (see all 35)
    phosphatidylinositol 5.16 3 7628435 (1)



    Find genes that share compounds with SCYL1           About GenesLikeMe



    (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 SCYL1 gene (2 alternative transcripts): 
    NM_001048218.1  NM_020680.3  

    Unigene Cluster for SCYL1:

    SCY1-like 1 (S. cerevisiae)
    Hs.238839  [show with all ESTs]
    Unigene Representative Sequence: NM_020680
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000270176(uc001oea.1 uc001oeb.1 uc001oec.1 uc001oee.1)
    ENST00000525364 ENST00000420247 ENST00000533862 ENST00000524944(uc009yqk.3)
    ENST00000527009 ENST00000529178 ENST00000531601 ENST00000524897 ENST00000526454
    ENST00000529981 ENST00000528545 ENST00000534462 ENST00000532290 ENST00000279270

    miRNA
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    hsa-miR-338-5p hsa-miR-493* hsa-let-7g* hsa-miR-3920 hsa-miR-29a* hsa-miR-3121-3p hsa-let-7a-2*
    SwitchGear 3'UTR luciferase reporter plasmidSCYL1 3' UTR sequence
    Inhib. RNA
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    GenScript: all cDNA clones in your preferred vector (see all 2): SCYL1 (NM_001048218)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SCYL1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCYL1
    Addgene plasmids for SCYL1 
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for SCYL1
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat SCYL1
      QuantiTect SYBR Green Assays in human, mouse, rat SCYL1
      QuantiFast Probe-based Assays in human, mouse, rat SCYL1

    Additional mRNA sequence: 

    AB047077.1 AB051427.1 AB051428.1 AF225424.1 AF297709.1 AK302198.1 AK314945.1 BC009967.2 
    BC069233.1 

    Selected DOTS entries (see all 25):

    DT.99968616  DT.40132208  DT.91768216  DT.95207538  DT.100045000  DT.95375691  DT.100045002  DT.95375685 
    DT.100827674  DT.95375704  DT.100045006  DT.209761  DT.91768243  DT.100827678  DT.100827685  DT.100726045 
    DT.120708848  DT.120708866  DT.426673  DT.95375689  DT.95375698  DT.99940699  DT.448809  DT.91910742 

    Selected AceView cDNA sequences (see all 394):

    BM711418 BQ682925 BF980954 BU162427 AV709386 BC009967 BQ941500 BE304404 
    AA378570 BP365871 BQ890211 BU162741 AA907523 BM695567 AA828386 AW204083 
    BF338656 BQ676924 BE018462 BQ888600 BM927960 BM708612 BC069233 BM743636 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for SCYL1 (see all 13)    About this scheme

    ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10a · 10b · 10c ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b ^ 15a ·
    SP1:                                                                                                                                                        -   
    SP2:                                                                                                                                                            
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 15b · 15c ^ 16a · 16b ^ 17a · 17b · 17c ^ 18 ^ 19
    SP1:                                                      
    SP2:                                                      
    SP3:                                                      
    SP4:                                                      
    SP5:                                                      


    ECgene alternative splicing isoforms for SCYL1

    (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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    SCYL1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGAGCCCGGC
    SCYL1 Expression
    About this image


    SCYL1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Blood (Hematopoietic System)
             Granulocytes Peripheral Blood
    SCYL1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SCYL1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.238839

    UniProtKB/Swiss-Prot: NTKL_HUMAN, Q96KG9
    Tissue specificity: Ubiquitous

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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCYL1

    (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 eukaryotes.

    Orthologs for SCYL1 gene from Selected species (see all 21)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Scyl11 , 5 SCY1-like 1 (S. cerevisiae)1, 5 87.63(n)1
    92.12(a)1
      19 (4.34 cM)5
    788911  NM_023912.21  NP_076401.11 
     57584275 
    lizard
    (Anolis carolinensis)
    Reptilia SCYL16
    SCY1-like 1 (S. cerevisiae)
    53(a)
    1 ↔ 1
    GL343717.1(228284-235164)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.22402 Xenopus laevis transcribed sequence with weak similarity more 76.69(n)    BX844762.1 
    zebrafish
    (Danio rerio)
    Actinopterygii wu:fk36e111 wu:fk36e11 66.33(n)
    70.33(a)
      793792  XM_001332472.3  XP_001332508.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta yata1 yata 56.78(n)
    52.62(a)
      43508  NM_143465.2  NP_651722.1 
    worm
    (Caenorhabditis elegans)
    Secernentea W07G4.31 W07G4.3 46.71(n)
    41.79(a)
      179789  NM_073858.4  NP_506259.2 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes CEX1(YOR112W)4 Cytoplasmic component of the nuclear aminoacylation-dependent more   --   15(531508-533793) 854279  NP_014755.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G407301 AT2G40730 48.31(n)
    40.34(a)
      818668  NM_129635.4  NP_181605.2 
    rice
    (Oryza sativa)
    Liliopsida Os01g08199001 Os01g0819900 50.22(n)
    42.58(a)
      4327606  NM_001051179.1  NP_001044644.1 


    ENSEMBL Gene Tree for SCYL1 (if available)
    TreeFam Gene Tree for SCYL1 (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 SCYL1 (see all 333)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0413654
    A metastatic melanoma sample4--see VAR_0413652 H Y mis40--------
    rs1915205171,2
    --61617576(+) CCAGGA/GACATG 2 -- us2k10--------
    rs1837839131,2
    --65290579(+) CTGCCC/TGAGAA 2 -- us2k10--------
    rs1470364151,2
    --65290593(+) CTGGGC/TATTGT 2 -- us2k10--------
    rs1476850391,2
    --65290604(+) CTCCCC/TGACTG 2 -- us2k10--------
    rs1410034861,2
    --65290661(+) CCCAGC/GCCGAC 2 -- us2k10--------
    rs11941011,2
    C,F--65290682(-) cagcaC/Gagacc 2 -- us2k14Minor allele frequency- G:0.05NA WA 124
    rs1143176121,2
    F--65290808(+) TGAGAT/CAGGAG 2 -- us2k11Minor allele frequency- C:0.01WA 118
    rs1502272961,2
    --65290935(+) GGGCAA/CAGTAC 2 -- us2k10--------
    rs1171494101,2
    F--65291042(+) GCAGAG/AATAGT 2 -- us2k11Minor allele frequency- A:0.01EA 120

    HapMap Linkage Disequilibrium report for SCYL1 (65292548 - 65306182 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for SCYL1 (see all 11):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2671903CNV Deletion23128226
    nsv361CNV Insertion18451855
    dgv1178n71CNV Loss21882294
    nsv897723CNV Loss21882294
    dgv1175n71CNV Loss21882294
    nsv897730CNV Loss21882294
    dgv1176n71CNV Loss21882294
    dgv1177n71CNV Loss21882294
    nsv897719CNV Loss21882294
    nsv897718CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SCYL1
    DNA2.0 Custom Variant and Variant Library Synthesis for SCYL1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 607982    OMIM disorders: --

    1 disease from the University of Copenhagen DISEASES database for SCYL1:
    Lymphoma

    Find genes that share disorders with SCYL1           About GenesLikeMe

    4 Novoseek inferred disease relationships for SCYL1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tumors 22 12 12947558 (3), 19958622 (3), 19272297 (1), 19198626 (1)
    cancer 9.64 8 12947558 (4), 19198626 (2), 19958622 (1)
    breast cancer 0 1 10493971 (1)
    carcinoma 0 5 15781263 (1), 19272297 (1), 19958622 (1)


    Export disorders for SCYL1 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 SCYL1 gene, integrated from 10 sources (see all 97):
    (articles sorted by number of sources associating them with SCYL1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Transcriptional upregulation of DNA polymerase beta by TEIF. (PubMed id 15963946)1, 2, 9 Zhao Y.... Zhang B. (Biochem. Biophys. Res. Commun. 2005)
    2. Molecular cloning and characterization of a human gene involved in transcriptional regulation of hTERT. (PubMed id 15504359)1, 2, 9 Tang Z.... Zhang B. (Biochem. Biophys. Res. Commun. 2004)
    3. Scyl1, mutated in a recessive form of spinocerebellar neurodegeneration, regulates COPI-mediated retrograde traffic. (PubMed id 18556652)1, 2 Burman J.L.... McPherson P.S. (J. Biol. Chem. 2008)
    4. Role of the AP2 beta-appendage hub in recruiting partners for clathrin-coated vesicle assembly. (PubMed id 16903783)1, 2 Schmid E.M.... McMahon H.T. (PLoS Biol. 2006)
    5. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    6. 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)
    7. Identification and characterization of the human protein kinase-like gene NTKL: mitosis-specific centrosomal localization of an alternatively spliced isoform. (PubMed id 12036289)1, 2 Kato M.... Miki Y. (Genomics 2002)
    8. Construction of a 350-kb sequence-ready 11q13 cosmid contig encompassing the markers D11S4933 and D11S546: mapping of 11 genes and 3 tumor-associated translocation breakpoints. (PubMed id 10843802)1, 2 van Asseldonk M....Geurts van Kessel A. (Genomics 2000)
    9. Cloning and preliminary characterization of a 105 kDa protein with an N-terminal kinase-like domain. (PubMed id 11118629)1, 3 Liu S.C....Lienhard G.E. (Biochim. Biophys. Acta 2000)
    10. [Expression of TEIF protein in colorectal tumors and its correlation with centrosome abnormality]. (PubMed id 19958622)1, 9 Gao Y. and Zhang B. (Ai Zheng 2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    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: 57410 HGNC: 14372 AceView: SCYL1 Ensembl:ENSG00000142186 euGenes: HUgn57410
    ECgene: SCYL1 H-InvDB: SCYL1

    (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 SCYL1 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 SCYL1 gene:
    Search GeneIP for patents involving SCYL1

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



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