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

CROCCP2 Gene

pseudogene   GIFtS: 27
GCID: GC01M016945

ciliary rootlet coiled-coil, rootletin pseudogene 2

(Previous names: ciliary rootlet coiled-coil, rootletin-like 1 )
(Previous symbol: CROCCL1)
  Search for CROCCP2
in
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Biological research products
for CROCCP2    

Aliases
for CROCCP2 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
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
MGC127601
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:         
NONCODE:n380553 n377827 n381062 n386563 n385928    

Export aliases for CROCCP2 gene to outside databases


Summaries
for CROCCP2 gene

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

Genomic Views
for CROCCP2 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.1  NT_004610.19  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for CROCCP2
         Other transcription factors

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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)

  • n380553
  • n385928
  • n386563
  • n381062
  • n377827
16944750 16952370 16959990 chr1

Proteins
for CROCCP2 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
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 MOPED and PaxDb: --

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Protein Domains /
Families
for CROCCP2 gene

(According to 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


Function
for CROCCP2 gene

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section
miRNA
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Inhib. RNA
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In Situ Assay
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Pathways & Interactions
for CROCCP2 gene

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CROCCP2

Drugs & Compounds
for CROCCP2 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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
Search CenterWatch for drugs/clinical trials and news about CROCCP2 

Transcripts
for CROCCP2 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 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,
RNAi Products from EMD Millipore,
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Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, 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
4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000421700(uc001azg.1) ENST00000362058(lincRNA)(uc001azj.1 uc001azi.1)
ENST00000412962(lincRNA)(uc009vov.2 uc001aze.3 uc001azf.3) ENST00000540383(lincRNA)(uc010ocf.2)


miRNA
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Inhib. RNA
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Primer
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Additional cDNA 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


Expression
for CROCCP2 gene

(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)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AACTCGGGAG

Microarray
RNAseq (Illumina Body Map)
(100×FPKM)½
SAGE (Serial Analysis of Gene Expression)
About this image

CROCCP2 expression in embryonic tissues and stem cells
Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
Stem Cell Differentiation: 1 LifeMap Cell 
NameCategory
PureStem™ progenitor EN2 (Embryonic Progenitor Cell)
Expression: Positive    Negative     Selective marker
Experimental details: Curated     Microarrays     In-situ hybridization

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: 
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Orthologs
for CROCCP2 gene

(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
for CROCCP2 gene

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
  --

Genomic Variants
for CROCCP2 gene

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

10/378 NCBI SNPs in CROCCP2 are shown (see all 378)     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
rs4256531,2
C,A,H--16944714(+) AAGACC/TCACAC 1 -- ds50010--------
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
rs120474411,2
A,H--16944825(+) AATATC/TTCTGT 1 -- nc-transcript-variant4Minor allele frequency- T:0.00NS EA 398
rs563328571,2
C,F--16944945(+) AACGTG/ATATAC 1 -- nc-transcript-variant2Minor allele frequency- A:0.50NA 4
rs120216211,2
C--16944953(+) TACATT/GCATAG 1 -- nc-transcript-variant3Minor allele frequency- G:0.17NA 6
rs2020761701,2
C--16945008(+) GCCACA/GANNNN 1 -- nc-transcript-variant0--------
rs10503221,2
C,F,A,H--16945027(-) CAGAGA/GGCATT 1 -- nc-transcript-variant4Minor allele frequency- G:0.21NA 14

HapMap Linkage Disequilibrium report for CROCCP2 (16944751 - 16971178 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
      Database of Genomic Variants (DGV) variations for CROCCP2: --

SABiosciences Cancer Mutation PCR Assays
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Disorders / Diseases
for CROCCP2 gene

(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.)
About This Section
   --

Publications
for CROCCP2 gene

(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)

External Searches for CROCCP2 gene

(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)

Genome Databases showing CROCCP2 gene

(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

Other Databases showing CROCCP2 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing CROCCP2 gene

(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
   --

Intellectual Property
for CROCCP2 gene

(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



Products
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About This Section

 
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