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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CROCCP3 Gene

pseudogene   GIFtS: 29
GCID: GC01M016794

Ciliary Rootlet Coiled-Coil, Rootletin Pseudogene 3

(Previous names: ciliary rootlet coiled-coil, rootletin-like 2)
(Previous symbol: CROCCL2)
  Search for CROCCP3
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Ciliary Rootlet Coiled-Coil, Rootletin Pseudogene 31 2
CROCCL21 2 3
Ciliary Rootlet Coiled-Coil, Rootletin-Like 21
dJ798A10.22
KIAA19223
Ciliary Rootlet Coiled-Coil Protein Pseudogene 33

External Ids:    HGNC: 294051   Entrez Gene: 1148192   Ensembl: ENSG000000809477   UniProtKB: Q8IVE03   
ORGUL members:         
NONCODE14:n381059 n406474      

Export aliases for CROCCP3 gene to outside databases

Previous GC identifer: GC01M015311


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for CROCCP3 Gene: 
CROCCP3 (ciliary rootlet coiled-coil, rootletin pseudogene 3) is a pseudogene, and is affiliated with the lncRNA class.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004610.19  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for CROCCP3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for CROCCP3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CROCCP3


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

Entrez Gene cytogenetic band: 1p36.13   Ensembl cytogenetic band:  1p36.13   HGNC cytogenetic band: 1p36.13

CROCCP3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CROCCP3 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M016794:  view genomic region     (about GC identifiers)

Start:
16,793,931 bp from pter      End:
16,825,752 bp from pter
Size:
31,822 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for CROCCP3

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: CROL2_HUMAN, Q8IVE0 (See protein sequence)
Recommended Name: Putative ciliary rootlet coiled-coil protein-like 2 protein  
Size: 287 amino acids; 33334 Da
Caution: Could be the product of a pseudogene
Sequence caution: Sequence=BAB67815.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: Q96PW6

Explore the universe of human proteins at neXtProt for CROCCP3: NX_Q8IVE0

Explore proteomics data for CROCCP3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q8IVE0

  • CROCCP3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    CROCCP3 Protein Expression

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    ProtoNet protein and cluster: Q8IVE0

    UniProtKB/Swiss-Prot: CROL2_HUMAN, Q8IVE0
    Similarity: Belongs to the rootletin family


    (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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Animal Models:
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    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CROCCP3

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CROCCP3 (CROL2)

    Search CenterWatch for drugs/clinical trials and news about CROCCP3

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    Unigene Cluster for CROCCP3:

    Ciliary rootlet coiled-coil, rootletin pseudogene 3
    Hs.597881  [show with all ESTs]
    Unigene Representative Sequence: AB067509
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000263511(uc001ayt.2) ENST00000591348 ENST00000420820(uc001ays.2)
    ENST00000591316 ENST00000590118 ENST00000589964
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    Additional mRNA sequence: 

    AB067509.1 AK126226.1 BC033082.1 NR_023386.1 

    8 DOTS entries:

    DT.91668884  DT.91788085  DT.92068846  DT.91963055  DT.101956109  DT.121346580  DT.40297433  DT.97845673 

    24/27 AceView cDNA sequences (see all 27):

    AA687903 BQ004425 AI810580 AA923751 BE299957 BM664533 AI473550 AA693700 
    AB067509 BE300056 BQ017435 BC033082 BF689579 AI742449 BU753178 R68848 
    AI452951 R68755 R01688 R62735 AI200771 R63689 BQ377570 BQ420265 

    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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CROCCP3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    CROCCP3 Expression
    About this image


    See CROCCP3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CROCCP3

    SOURCE GeneReport for Unigene cluster: Hs.597881
        SABiosciences Custom PCR Arrays for CROCCP3
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    In Situ
    Assay Products:
     

     
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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)
    About This Section
      --

    ENSEMBL Gene Tree for CROCCP3 (if available)
    TreeFam Gene Tree for CROCCP3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CROCCP3 gene
    1 SIMAP similar gene for CROCCP3 using alignment to 1 protein entry:     CROL2_HUMAN:
    CROCC

    CROCCP3 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/660 SNPs in CROCCP3 are shown (see all 660)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1163289131,2
    F--16793473(+) GGGCAT/GAGTGG 1 -- ds50011Minor allele frequency- G:0.04NA 120
    rs1870588851,2
    --16793604(+) TTATCC/TGAACG 1 -- ds50010--------
    rs1465323351,2
    C--16793608(+) CCGAAC/TGTGTT 1 -- ds50010--------
    rs756508501,2
    C,F--16793645(+) TGAAAG/AGCTGA 1 -- ds50011Minor allele frequency- A:0.06WA 118
    rs1490311661,2
    --16793865(+) TCTCTA/GCCATA 1 -- ds50010--------
    rs1430075531,2
    C--16793932(+) ATGTGA/CCATTT 1 -- nc-transcript-variant0--------
    rs6966041,2
    C,F,A,H--16793949(-) ATAAAT/CGCTGT 1 -- nc-transcript-variant12Minor allele frequency- C:0.44MN NA WA EA 736
    rs412692011,2
    --16794091(+) TACACA/GTTGAT 1 -- nc-transcript-variant0--------
    rs18776231,2
    C,F,A,H--16794115(-) TCTCCC/GCTCAG 1 -- nc-transcript-varianttrp314Minor allele frequency- G:0.09MN NS EA NA WA 1262
    rs168527571,2
    C,F,H--16794147(+) AAGGGG/TTGTAC 1 -- nc-transcript-variantese321Minor allele frequency- T:0.03NA NS EA WA 2382

    HapMap Linkage Disequilibrium report for CROCCP3 (16793931 - 16825752 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10/13 variations for CROCCP3 (see all 13):    About this table     
    Variant IDTypeSubtypePubMed ID
    dgv20e201CNV Deletion23290073
    esv2677321CNV Deletion23128226
    esv2678817CNV Deletion23128226
    nsv436814CNV Insertion17901297
    nsv159668CNV Loss16902084
    dgv1n68CNV Loss17160897
    nsv870673CNV Gain21882294
    esv2750816CNV Gain17911159
    nsv9324CNV Gain+Loss18304495
    nsv428421CNV Gain+Loss18775914

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (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)
    About This Section

    PubMed articles for CROCCP3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with CROCCP3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins. (PubMed id 11572484)1, 2, 3 Nagase T....Ohara O. (2001)
    2. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
    3. 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. (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. (2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 114819 HGNC: 29405 AceView: KIAA1922 Ensembl:ENSG00000080947 euGenes: HUgn114819
    ECgene: CROCCP3 H-InvDB: CROCCP3

    (According to HUGE)
    About This Section
    HUGE: KIAA1922

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
      --

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for CROCCP3 gene:
    Search GeneIP for patents involving CROCCP3

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

     
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     Browse Proteins at Cloud-Clone Corp.
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     Search LifeMap BioReagents cell lines for CROCCP3
     Gene Synthesis
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     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CROCCP3
     Browse SwitchGear 3'UTR luciferase reporter plasmids for CROCCP3
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     Search ThermoFisher Antibodies for CROCCP3
     Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat CROCCP3
     inGenious Targeting Laboratory - Custom generated mouse model solutions for CROCCP3
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for CROCCP3
    Customized:
     lentivirus for stable overexpression of CROCCP3
     lentivirus expression plasmids for stable overexpression of CROCCP3
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     Search LSBio for Antibodies for CROCCP3
    Customized transgenic rodents for:
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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