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ODF3L2 Gene

protein-coding   GIFtS: 42
GCID: GC19M000463

Outer Dense Fiber Of Sperm Tails 3-Like 2

(Previous name: chromosome 19 open reading frame 19)
(Previous symbol: C19orf19)
  See related disease
at  

(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
Outer Dense Fiber Of Sperm Tails 3-Like 21 2
C19orf191 2 3
Chromosome 19 Open Reading Frame 191
Outer Dense Fiber Protein 3-Like Protein 22

External Ids:    HGNC: 268411   Entrez Gene: 2844512   Ensembl: ENSG000001817817   UniProtKB: Q3SX643   

Export aliases for ODF3L2 gene to outside databases

Previous GC identifers: GC19M000417 GC19M000234


(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 ODF3L2 Gene:
ODF3L2 (outer dense fiber of sperm tails 3-like 2) is a protein-coding gene. Diseases associated with ODF3L2 include malaria. An important paralog of this gene is ODF3.


(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:
NC_000019.10  NT_011295.12  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ODF3L2 gene promoter:
         AhR   SRF   p53   SRF (504 AA)   AP-4   Arnt   E2F-1   E2F   COMP1   Sox9   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidODF3L2 promoter sequence
   Search Chromatin IP Primers for ODF3L2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ODF3L2


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

Entrez Gene cytogenetic band: 19p13.3   Ensembl cytogenetic band:  19p13.3   HGNC cytogenetic band: 19p13.3

ODF3L2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ODF3L2 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M000463:  view genomic region     (about GC identifiers)

Start:
463,346 bp from pter      End:
474,983 bp from pter
Size:
11,638 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: OD3L2_HUMAN, Q3SX64 (See protein sequence)
Recommended Name: Outer dense fiber protein 3-like protein 2  
Size: 289 amino acids; 30781 Da
Secondary accessions: Q3SX65 Q8N1L2
Alternative splicing: 2 isoforms:  Q3SX64-1   Q3SX64-2   

Explore the universe of human proteins at neXtProt for ODF3L2: NX_Q3SX64

Explore proteomics data for ODF3L2 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ODF3L2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_872383.1  
    ENSEMBL proteins: 
     ENSP00000318029   ENSP00000372143  

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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:
     IPR010736 SHIPPO-rpt

    Graphical View of Domain Structure for InterPro Entry Q3SX64

    ProtoNet protein and cluster: Q3SX64

    UniProtKB/Swiss-Prot: OD3L2_HUMAN, Q3SX64
    Similarity: Belongs to the ODF3 family
    Similarity: Contains 3 STPGR (Sperm-tail PG-rich) repeats


    ODF3L2 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, 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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Phenotypes:
         1 MGI phenotypic allele for Odf3l2 (no phenotypes)

    ODF3L2 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for ODF3L2
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    hsa-miR-204 hsa-miR-3657 hsa-miR-211
    SwitchGear 3'UTR luciferase reporter plasmidODF3L2 3' UTR sequence
    Inhib. RNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ODF3L2


    (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
    cytoskeleton5
    extracellular2
    nucleus2
    cytosol1
    peroxisome1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005881cytoplasmic microtubule IDA--

    ODF3L2 for ontologies           About GeneDecksing


    (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 ODF3L2
    Interactions:

        Search GeneGlobe Interaction Network for ODF3L2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 8)

    Selected Interacting proteins for ODF3L2 (ENSP000003180294) via UniProtKB, MINT, STRING, and/or I2D (see all 8)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PFDN2ENSP000003569894STRING: ENSP00000356989
    VBP1ENSP000002864284STRING: ENSP00000286428
    ENSG00000206283ENSP000003726944STRING: ENSP00000372694
    ENSG00000235692ENSP000004156784STRING: ENSP00000415678
    ENSG00000237335ENSP000004123194STRING: ENSP00000412319
    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 ODF3L2 (OD3L2)



    (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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for ODF3L2 gene: 
    NM_182577.2  

    Unigene Cluster for ODF3L2:

    Outer dense fiber of sperm tails 3-like 2
    Hs.104777  [show with all ESTs]
    Unigene Representative Sequence: NM_182577
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000315489(uc002lor.3) ENST00000382696(uc010drp.3) ENST00000591681

    miRNA
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    3 qRT-PCR Assays for microRNAs that regulate ODF3L2:
    hsa-miR-204 hsa-miR-3657 hsa-miR-211
    SwitchGear 3'UTR luciferase reporter plasmidODF3L2 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat ODF3L2
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    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat ODF3L2
      QuantiFast Probe-based Assays in human, mouse, rat ODF3L2

    Additional mRNA sequence: 

    AK097378.1 BC104468.1 BC104469.1 

    4 DOTS entries:

    DT.306430  DT.99941459  DT.95081892  DT.121500341 

    7 AceView cDNA sequences:

    AK097378 NM_182577 AA412448 AA412338 BI520645 BI520424 BI465172 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for ODF3L2    About this scheme

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


    ECgene alternative splicing isoforms for ODF3L2

    (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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    ODF3L2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCCCTGTGCA
    ODF3L2 Expression
    About this image

    ODF3L2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ODF3L2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.104777
        Custom PCR Arrays for ODF3L2
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    QuantiFast Probe-based Assays in human, mouse, rat ODF3L2
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ODF3L2

    (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 ODF3L2 gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Odf3l21 , 5 outer dense fiber of sperm tails 3-like 21, 5 79.64(n)1
    82.91(a)1
      10 (39.72 cM)5
    3823841  NM_001033473.21  NP_001028645.11 
     796395265 
    lizard
    (Anolis carolinensis)
    Reptilia ODF3L26
    outer dense fiber of sperm tails 3-like 2
    48(a)
    1 ↔ 1
    GL344253.1(1870-4180)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia odf3l21 outer dense fiber of sperm tails 3-like 2 52.73(n)
    43.03(a)
      100487571  XM_002939767.2  XP_002939813.2 
    zebrafish
    (Danio rerio)
    Actinopterygii odf3l26
    ODF3L2 (1 of 2)6
    outer dense fiber of sperm tails 3-like 2
    44(a)
    43(a)
    many → 1
    many → 1
    22(21627456-21633314) ENSDARG00000021432
    2(42027825-42035137) ENSDARG00000014209
    fruit fly
    (Drosophila melanogaster)
    Insecta CG102521 CG10252 44.18(n)
    33.49(a)
      42794  NM_142914.3  NP_651171.1 


    ENSEMBL Gene Tree for ODF3L2 (if available)
    TreeFam Gene Tree for ODF3L2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ODF3L2 gene
    ODF32  ODF3B2  ODF3L12  
    3 SIMAP similar genes for ODF3L2 using alignment to 1 protein entry:     OD3L2_HUMAN:
    ODF3    ODF3B    ODF3L1

    ODF3L2 for paralogs           About GeneDecksing



    (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 ODF3L2 (see all 479)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs19681291,2
    C,F,A,H--463025(+) ggccgA/Ggctcg 1 -- int122Minor allele frequency- G:0.14NS EA NA WA CSA 1946
    rs1469102931,2
    --463109(+) ATCCTA/GGCTAA 1 -- int10--------
    rs1393003791,2
    C--463174(+) CGGGCA/GCCTGT 1 -- int10--------
    rs1430093511,2
    --463272(+) CTTCAG/TTCTGG 1 -- int10--------
    rs58266941,2
    C--463311(+) aaaaa-/Aaaaaa 1 -- int11Minor allele frequency- A:0.00NA 2
    rs19681301,2
    C--463326(+) GACACG/ATTAAA 1 -- int112Minor allele frequency- A:0.12NA WA CSA EA 374
    rs1146874131,2
    C,F--463469(+) GCTAAC/TCCAAG 1 -- ut311Minor allele frequency- T:0.15WA 118
    rs1829074631,2
    --463510(+) TGGACC/GCCGAG 1 -- ut310--------
    rs10528821,2
    C,F,A,H--463528(-) GCTTCT/CTGTGT 1 -- ut31 ese323Minor allele frequency- C:0.45MN NS EA NA CSA WA 2530
    rs1474684031,2
    --463602(+) GGCCTG/TGCGTG 1 -- ut310--------

    HapMap Linkage Disequilibrium report for ODF3L2 (463346 - 474983 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for ODF3L2 (see all 27):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv1405790CNV Deletion17803354
    esv1002488CNV Deletion20482838
    esv1453393CNV Deletion17803354
    esv996354CNV Deletion20482838
    esv2671474CNV Deletion23128226
    nsv138338CNV Insertion16902084
    nsv509712CNV Insertion20534489
    esv1506097CNV Insertion17803354
    nsv470101CNV Loss18288195
    nsv910083CNV 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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    1 disease for ODF3L2:    
    About MalaCards
    malaria


    ODF3L2 for disorders           About GeneDecksing


    Export disorders for ODF3L2 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 ODF3L2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ODF3L2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2, 3 Ota T.... Sugano S. (Nat. Genet. 2004)
    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. The protein interaction landscape of the human CMGC kinase group. (PubMed id 23602568)1 Varjosalo M....Gstaiger M. (Cell Rep 2013)
    4. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (Sci. Signal. 2010)
    5. Variants in several genomic regions associated with asperger disorder. (PubMed id 21182207)1 Salyakina D....Pericak-Vance M.A. (Autism Res 2010)
    6. Tandem immunoprecipitation of phosphotyrosine-mass spectrometry (TIPY-MS) indicates C19ORF19 becomes tyrosine-phosphorylated and associated with activated epidermal growth factor receptor. (PubMed id 18271526)1 Tong J....Moran M.F. (J. Proteome Res. 2008)
    7. 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)

    (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: 284451 HGNC: 26841 AceView: C19orf19 Ensembl:ENSG00000181781 euGenes: HUgn284451
    ECgene: ODF3L2 H-InvDB: ODF3L2

    (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 ODF3L2 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 ODF3L2 gene:
    Search GeneIP for patents involving ODF3L2

    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, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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 inGenious Targeting Laboratory, 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

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