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

CROCCP2 Gene

pseudogene   GIFtS: 26
GCID: GC01M016945

Ciliary Rootlet Coiled-Coil, Rootletin Pseudogene 2

(Previous names: ciliary rootlet coiled-coil, rootletin-like 1)
(Previous symbol: CROCCL1)
  Search for CROCCP2
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 21 2
CROCCL11 2 3
Ciliary Rootlet Coiled-Coil, Rootletin-Like 11
Ciliary Rootlet Coiled-Coil Protein Pseudogene 23

External Ids:    HGNC: 281701   Entrez Gene: 848092   Ensembl: ENSG000002159087   UniProtKB: Q86T233   
ORGUL members:         
NONCODE14:n377707 n385928 n380553 n377827 n378090 see all 9      

Export aliases for CROCCP2 gene to outside databases


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

GeneCards Summary for CROCCP2 Gene: 
CROCCP2 (ciliary rootlet coiled-coil, rootletin pseudogene 2) 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 CROCCP2
         Other transcription factors

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   Search SABiosciences Chromatin IP Primers for CROCCP2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CROCCP2


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

CROCCP2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CROCCP2 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M016945:  view genomic region     (about GC identifiers)

Start:
16,944,751 bp from pter      End:
16,971,178 bp from pter
Size:
26,428 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for CROCCP2

(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: CROL1_HUMAN, Q86T23 (See protein sequence)
Recommended Name: Putative ciliary rootlet coiled-coil protein-like 1 protein  
Size: 111 amino acids; 12396 Da
Caution: Could be the product of a pseudogene
Sequence caution: Sequence=BAC03395.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: Q8NF65 Q96FR5 Q9BRE8

Explore the universe of human proteins at neXtProt for CROCCP2: NX_Q86T23

CROCCP2 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

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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: Q86T23

UniProtKB/Swiss-Prot: CROL1_HUMAN, Q86T23
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 CROCCP2

(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 CROCCP2 (CROL1)

Search CenterWatch for drugs/clinical trials and news about CROCCP2

(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 Clusters for CROCCP2:

Ciliary rootlet coiled-coil, rootletin pseudogene 2
Hs.631865  [show with all ESTs], Hs.733729  [show with all ESTs]
Unigene Representative Sequences: AK090414, AK123337
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000412962(lincRNA)(uc009vov.2 uc001aze.3 uc001azf.3) ENST00000362058(lincRNA)(uc001azj.1 uc001azi.1)
ENST00000540383(lincRNA)(uc010ocf.2)
miRNA
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Additional mRNA sequence: 

AK123337.1 BC015342.1 BC051002.1 BC127868.1 

23 DOTS entries:

DT.92441958  DT.92030688  DT.100783345  DT.40297433  DT.446540  DT.40208661  DT.99943689  DT.406937 
DT.92441951  DT.121346586  DT.121346695  DT.121461955  DT.95268517  DT.121346624  DT.121636487  DT.40191172 
DT.100829120  DT.121346541  DT.97823354  DT.100709915  DT.121346685  DT.40299236  DT.97800486 

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

CROCCP2 expression in normal human tissues (normalized intensities)      CROCCP2 embryonic expression: see
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AACTCGGGAG
CROCCP2 Expression
About this image


CROCCP2 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database 
 5/2 selected tissues (see all 2) fully expand
 
 Brain (Nervous System)    fully expand to see all 2 entries
         superior temporal gyrus   
 
 Uncategorized (Uncategorized)
         PureStem Progenitor ES-139

Genevestigator expression for CROCCP2

SOURCE GeneReport for Unigene clusters: Hs.631865 Hs.733729
    SABiosciences Custom PCR Arrays for CROCCP2
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CROCCP2

(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 CROCCP2 (if available)
TreeFam Gene Tree for CROCCP2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for CROCCP2 gene
3 SIMAP similar genes for CROCCP2 using alignment to 1 protein entry:     CROL1_HUMAN:
CROCC    CEP250    LOC728763

CROCCP2 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

10/410 SNPs in CROCCP2 are shown (see all 410)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs22365481,2
C,F,O,A,H--16944489(-) CATCAT/CATAAG 1 -- ds50015Minor allele frequency- C:0.42NA CSA 12
rs9422591,2
C,O,A,H--16944617(-) AACTGA/GATAGG 1 -- ds50017Minor allele frequency- G:0.00NS NA CSA 253
rs1136393331,2
C--16944723(+) GGCAA-/AGGACA 1 -- ds50011Minor allele frequency- A:0.50CSA 2
rs120488001,2
C--16944749(+) GACATA/GGTTAC 1 -- ds50013Minor allele frequency- G:0.17NA 6
rs30931,2
C,F,A,H--16944809(-) CTGCTC/GTCCTC 1 -- nc-transcript-variant7Minor allele frequency- G:0.50MN NA WA 384
rs120216211,2
C--16944953(+) TACATT/GCATAG 1 -- nc-transcript-variant3Minor allele frequency- G:0.17NA 6
rs1429839651,2
C--16944979(+) GATAA-/AAGAAGAG 1 -- nc-transcript-variant0--------
rs666018051,2
C--16944980(+) AAAGA-/AGAGCCTC 1 -- nc-transcript-variant0--------
rs670648961,2
C--16944981(+) GATAA-/AAG/
        
AAGAG
2 -- nc-transcript-variant1NA 2
rs78031,2
C,F,A,H--16945065(+) AGAACG/AAATTT 1 -- nc-transcript-variant9Minor allele frequency- A:0.49MN NA 390

HapMap Linkage Disequilibrium report for CROCCP2 (16944751 - 16971178 bp)

Structural Variations
     Database of Genomic Variants (DGV) 10/34 variations for CROCCP2 (see all 34):    About this table     
Variant IDTypeSubtypePubMed ID
dgv20e201CNV Deletion23290073
esv2678817CNV Deletion23128226
dgv21e199CNV Deletion23128226
nsv821511CNV Duplication20802225
nsv3854CNV Insertion18451855
nsv436814CNV Insertion17901297
esv33046CNV Loss17666407
nsv3743CNV Loss18451855
esv29948CNV Loss18421352
esv2750816CNV Gain17911159

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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 CROCCP2 gene integrated from 9 sources:
(articles sorted by number of sources associating them with CROCCP2)
    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 Ota T.... Sugano S. (2004)
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
  3. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
  4. 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)

(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: 84809 HGNC: 28170 Ensembl:ENSG00000215908 euGenes: HUgn84809 ECgene: CROCCP2
H-InvDB: CROCCP2

(According to HUGE)
About This Section
  --

(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 CROCCP2 gene:
Search GeneIP for patents involving CROCCP2

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
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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 lentivirus for stable overexpression of CROCCP2
 lentivirus expression plasmids for stable overexpression of CROCCP2
 adenovirus for overexpression of CROCCP2
 Search LSBio for Antibodies for CROCCP2
Customized transgenic rodents for:
 Humanization
 Biomarker expression
 Off-target effect monitoring
 Translational medicine
 Tissue-specific gene expresssion
 Time-controlled gene expresssion
       
GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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