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CDR2L Gene

protein-coding   GIFtS: 45
GCID: GC17P072983

Cerebellar Degeneration-Related Protein 2-Like

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disease database 

(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
Cerebellar Degeneration-Related Protein 2-Like1 2
Paraneoplastic Antigen1 2
Paraneoplastic 62 KDa Antigen2 3
HUMPPA2 3

External Ids:    HGNC: 299991   Entrez Gene: 308502   Ensembl: ENSG000001090897   UniProtKB: Q86X023   

Export aliases for CDR2L gene to outside databases

Previous GC identifers: GC17P070496 GC17P068394


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for CDR2L Gene:
CDR2L (cerebellar degeneration-related protein 2-like) is a protein-coding gene. An important paralog of this gene is CDR2.


(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_000017.10  NT_010783.16  NC_018928.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CDR2L gene promoter:
         Pbx1a   Tal-1beta   LCR-F1   AREB6   MEF-2A   c-Rel   CP2   Sox9   aMEF-2   Ik-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCDR2L promoter sequence
   Search Chromatin IP Primers for CDR2L

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CDR2L


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

Entrez Gene cytogenetic band: 17q25.1   Ensembl cytogenetic band:  17q25.1   HGNC cytogenetic band: 17q25.1

CDR2L Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CDR2L gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P072983:  view genomic region     (about GC identifiers)

Start:
72,983,727 bp from pter      End:
73,001,895 bp from pter
Size:
18,169 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: CDR2L_HUMAN, Q86X02 (See protein sequence)
Recommended Name: Cerebellar degeneration-related protein 2-like  
Size: 465 amino acids; 53010 Da
Sequence caution: Sequence=AAA91850.1; Type=Frameshift; Positions=10, 184, 268, 345; Sequence=AAH47534.1;
Type=Erroneous initiation;
Secondary accessions: B4DFA7 Q15175

Explore the universe of human proteins at neXtProt for CDR2L: NX_Q86X02

Explore proteomics data for CDR2L at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CDR2L Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_055418.2  
    ENSEMBL proteins: 
     ENSP00000336587  

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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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    1 InterPro protein domain:
     IPR026079 CDR2

    Graphical View of Domain Structure for InterPro Entry Q86X02

    ProtoNet protein and cluster: Q86X02

    UniProtKB/Swiss-Prot: CDR2L_HUMAN, Q86X02
    Similarity: Belongs to the CDR2 family


    Find genes that share domains with CDR2L           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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    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for CDR2L

    miRNA
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    miRTarBase miRNAs that target CDR2L:
    hsa-mir-877-5p (MIRT037215)

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    hsa-miR-429 hsa-miR-631 hsa-miR-128 hsa-miR-650 hsa-miR-124 hsa-miR-186 hsa-miR-506 hsa-miR-200b
    SwitchGear 3'UTR luciferase reporter plasmidCDR2L 3' UTR sequence
    Inhib. RNA
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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 COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol2

    (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 CDR2L
    Interactions:

        Search GeneGlobe Interaction Network for CDR2L

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

    Selected Interacting proteins for CDR2L (Q86X023 ENSP000003365874) via UniProtKB, MINT, STRING, and/or I2D (see all 35)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GRB2P629933I2D: score=2 
    YWHAGP619813I2D: score=2 
    CDT1ENSP000003010194STRING: ENSP00000301019
    POGZENSP000002717154STRING: ENSP00000271715
    SLMAPENSP000002959514STRING: ENSP00000295951
    About this table

    (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 CDR2L



    (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 CDR2L gene: 
    NM_014603.2  

    Unigene Cluster for CDR2L:

    Cerebellar degeneration-related protein 2-like
    Hs.78358  [show with all ESTs]
    Unigene Representative Sequence: NM_014603
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000337231(uc002jml.4)
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate CDR2L (see all 42):
    hsa-miR-429 hsa-miR-631 hsa-miR-128 hsa-miR-650 hsa-miR-124 hsa-miR-186 hsa-miR-506 hsa-miR-200b
    SwitchGear 3'UTR luciferase reporter plasmidCDR2L 3' UTR sequence
    Inhib. RNA
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    Primer
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CDR2L
      QuantiTect SYBR Green Assays in human, mouse, rat CDR2L
      QuantiFast Probe-based Assays in human, mouse, rat CDR2L

    Additional mRNA sequence: 

    AK294006.1 BC013105.2 BC047534.1 CR749715.1 L02867.1 

    3 DOTS entries:

    DT.456306  DT.91740462  DT.97843263 

    Selected AceView cDNA sequences (see all 90):

    BQ002019 CR598377 BQ219786 AI028681 BF939923 AI741481 BM728314 BG032168 
    BM740703 AA897672 BE349886 CF125249 CA428540 BU622433 AW239343 AW673179 
    NM_014603 AI682299 BQ007652 BQ671973 BM723075 BQ009482 BC047534 R37688 

    GeneLoc Exon Structure


    (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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    CDR2L expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CCTTATTTAT
    CDR2L Expression
    About this image

    CDR2L Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CDR2L Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.78358
        Custom PCR Arrays for CDR2L
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDR2L

    (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 animals.

    Orthologs for CDR2L gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cdr2l1 , 5 cerebellar degeneration-related protein 2-like1, 5 88.24(n)1
    93.33(a)1
      11 (80.84 cM)5
    2379881  NM_001080929.11  NP_001074398.11 
     1153819165 
    chicken
    (Gallus gallus)
    Aves CDR2L1 cerebellar degeneration-related protein 2-like 76.39(n)
    75.81(a)
      428685  XM_426243.4  XP_426243.3 
    lizard
    (Anolis carolinensis)
    Reptilia CDR2L6
    cerebellar degeneration-related protein 2-like
    74(a)
    1 ↔ 1
    2(114967528-114975688)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia cdr2l1 cerebellar degeneration-related protein 2-like 70.66(n)
    69.68(a)
      100486752  XM_002939980.2  XP_002940026.2 
    zebrafish
    (Danio rerio)
    Actinopterygii cdr2l1 cerebellar degeneration-related protein 2-like 67.57(n)
    63.04(a)
      336227  NM_205564.1  NP_991127.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Cen6
    Centrocortin
    13(a)
    1 → many
    2L(20678921-20681844)


    ENSEMBL Gene Tree for CDR2L (if available)
    TreeFam Gene Tree for CDR2L (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CDR2L gene
    CDR22  
    1 SIMAP similar gene for CDR2L using alignment to 1 protein entry:     CDR2L_HUMAN:
    CDR2

    Find genes that share paralogs with CDR2L           About GenesLikeMe



    (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 CDR2L (see all 445)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs108527581,2
    C,F,A,H--72981775(+) caacaA/GCTTAC 1 -- us2k124Minor allele frequency- G:0.34NS EA NA WA CSA 2348
    rs72101251,2
    C--72981835(+) aagacG/Acagtc 1 -- us2k12Minor allele frequency- A:0.30NA WA 120
    rs99048041,2
    C--72981877(+) gcaatC/Ttcagc 1 -- us2k1 tfbs30--------
    rs1915962131,2
    --72981994(+) TAGTAC/GAGACA 1 -- us2k10--------
    rs1841556771,2
    --72982138(+) CCTATA/GTATTC 1 -- us2k10--------
    rs1381911941,2
    --72982204(+) TTTTT-/TGTC  
            
    TTTTT
    1 -- us2k10--------
    rs743608931,2
    --72982207(+) TTTGTC/TTTTTT 1 -- us2k11Minor allele frequency- T:0.50NA 2
    rs711594041,2
    C--72982208(-) GTCTCA/-AAAAA 1 -- us2k11Minor allele frequency- -:0.00NA 2
    rs124505111,2
    H--72982313(+) tcctaA/Gactca 1 -- us2k10--------
    rs1889049991,2
    --72982400(+) TTTAAA/TTTTTT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for CDR2L (72983727 - 73001895 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 6 variations for CDR2L:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv3255n71CNV Loss21882294
    nsv833540CNV Loss17160897
    nsv908744CNV Loss21882294
    dgv3254n71CNV Loss21882294
    nsv908755CNV Loss21882294
    nsv908753CNV Loss21882294

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    (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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      --

    (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 CDR2L gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CDR2L)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (EMBO J. 2009)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    5. (PubMed id )2 

    (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: 30850 HGNC: 29999 AceView: HUMPPA Ensembl:ENSG00000109089 euGenes: HUgn30850
    ECgene: CDR2L H-InvDB: CDR2L

    (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 CDR2L 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 CDR2L gene:
    Search GeneIP for patents involving CDR2L

    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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    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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