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CRCT1 Gene

protein-coding   GIFtS: 41
GCID: GC01P152486

Cysteine-Rich C-Terminal 1

(Previous name: chromosome 1 open reading frame 42)
(Previous symbol: C1orf42)
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(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
Cysteine-Rich C-Terminal 11 2     NICE-12
C1orf421 2 3     Cysteine-Rich C-Terminal Protein 12
Protein NICE-12 3     NICE13
Chromosome 1 Open Reading Frame 421     

External Ids:    HGNC: 298751   Entrez Gene: 545442   Ensembl: ENSG000001695097   UniProtKB: Q9UGL93   

Export aliases for CRCT1 gene to outside databases

Previous GC identifers: GC01P150756 GC01P123860


(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 CRCT1 Gene:
CRCT1 (cysteine-rich C-terminal 1) is a protein-coding 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000001.10  NC_018912.2  NT_004487.20  
Regulatory elements:
   Regulatory transcription factor binding sites in the CRCT1 gene promoter:
         HFH-3   C/EBPbeta   AML1a   p53   JunB   GATA-1   FOXI1   Ik-2   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCRCT1 promoter sequence
   Search Chromatin IP Primers for CRCT1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CRCT1


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

Entrez Gene cytogenetic band: 1q21   Ensembl cytogenetic band:  1q21.3   HGNC cytogenetic band: 1q21

CRCT1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CRCT1 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P152486:  view genomic region     (about GC identifiers)

Start:
152,486,978 bp from pter      End:
152,488,486 bp from pter
Size:
1,509 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., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, 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: CRCT1_HUMAN, Q9UGL9 (See protein sequence)
Recommended Name: Cysteine-rich C-terminal protein 1  
Size: 99 amino acids; 9736 Da
Secondary accessions: A4QN00 Q6IAD7

Explore the universe of human proteins at neXtProt for CRCT1: NX_Q9UGL9

Explore proteomics data for CRCT1 at MOPED


See CRCT1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_061933.1  
ENSEMBL proteins: 
 ENSP00000357779  

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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:
 IPR026075 SPRR/LCE

Graphical View of Domain Structure for InterPro Entry Q9UGL9

ProtoNet protein and cluster: Q9UGL9


Find genes that share domains with CRCT1           About GenesLikeMe


(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, 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:
   inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CRCT1
   inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CRCT1

   genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for CRCT1
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Selected qRT-PCR Assays for microRNAs that regulate CRCT1 (see all 22):
hsa-let-7d hsa-miR-106a hsa-let-7c hsa-miR-519a hsa-let-7g hsa-let-7a hsa-miR-93 hsa-miR-520g
SwitchGear 3'UTR luciferase reporter plasmidCRCT1 3' UTR sequence
Inhib. RNA
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Predesigned siRNA for gene silencing in human, mouse, rat CRCT1

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OriGene ORF clones in mouse, rat for CRCT1
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GenScript: all cDNA clones in your preferred vector: CRCT1 (NM_019060)
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Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CRCT1

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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CRCT1


(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
extracellular1

(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 CRCT1
Interactions:

    Search GeneGlobe Interaction Network for CRCT1

STRING Interaction Network Preview (showing 5 interactants - click image to see 9)

Selected Interacting proteins for CRCT1 (Q9UGL92, 3 ENSP000003577794) via UniProtKB, MINT, STRING, and/or I2D (see all 21)
InteractantInteraction Details
GeneCardExternal ID(s)
APLP1P516932, 3MINT-65725 I2D: score=4 
CHD3Q128732, 3MINT-65732 I2D: score=4 
KIAA1377Q9P2H02, 3MINT-65731 I2D: score=4 
PTNP212462, 3MINT-65724 I2D: score=4 
TLE1Q047242, 3MINT-65726 I2D: score=4 
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 CRCT1



(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 CRCT1 gene: 
NM_019060.2  

Unigene Cluster for CRCT1:

Cysteine-rich C-terminal 1
Hs.110196  [show with all ESTs]
Unigene Representative Sequence: AJ243662
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000368790(uc001ezz.3)
miRNA
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Selected qRT-PCR Assays for microRNAs that regulate CRCT1 (see all 22):
hsa-let-7d hsa-miR-106a hsa-let-7c hsa-miR-519a hsa-let-7g hsa-let-7a hsa-miR-93 hsa-miR-520g
SwitchGear 3'UTR luciferase reporter plasmidCRCT1 3' UTR sequence
Inhib. RNA
Products:
     
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Predesigned siRNA for gene silencing in human, mouse, rat CRCT1
Clone
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OriGene ORF clones in mouse, rat for CRCT1
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Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CRCT1
Primer
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Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CRCT1
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  QuantiFast Probe-based Assays in human, mouse, rat CRCT1

Additional mRNA sequence: 

AJ243662.1 BC119710.2 CR457218.1 

1 DOTS entry:

DT.309992 

15 AceView cDNA sequences:

NM_019060 BG696730 W67778 AJ243662 BX279681 AW450170 AI096376 CR457218 
W72809 AA723264 AA009484 W96310 W96216 W67816 BE715813 

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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CRCT1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: CGTGGGACAC
CRCT1 Expression
About this image


CRCT1 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 4) fully expand
 
 Epithelial Cells
         Fetal Matrix Cells Hair Follicle
 
 Lung (Respiratory System)
         Basal Cells Respiratory Bronchioles
 
 Hair (Integumentary System)
         Fetal Matrix Cells Hair Follicle
 
 Epidermis (Integumentary System)
CRCT1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

CRCT1 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.110196
    Custom PCR Arrays for CRCT1
Primer
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CRCT1

(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 human and mouse.

Orthologs for CRCT1 gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Crct15 cysteine-rich C-terminal 1   --   3 (40.14 cM) 93014205 


ENSEMBL Gene Tree for CRCT1 (if available)
TreeFam Gene Tree for CRCT1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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(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 CRCT1 (see all 119)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs37534511,2
C,F,A,H--152485227(-) TTCTCC/AGTTCT 1 -- us2k129Minor allele frequency- A:0.37EA NA NS WA CSA 4324
rs730048511,2
C,F--152485240(+) ACACCC/TTTCTT 1 -- us2k14Minor allele frequency- T:0.25WA CSA 124
rs106688761,2
C--152485279(+) GTGTG-/GT/T  
  G
/TGTG
CAGTG
1 -- us2k11NA 2
rs1822098251,2
--152485356(+) CTGTGA/TTGGGT 1 -- us2k10--------
rs1875659101,2
--152485386(+) TAGGAA/GTGGGC 1 -- us2k10--------
rs48454411,2
C,F,A,H--152485421(+) ATGTAT/CCTAGA 1 -- us2k114Minor allele frequency- C:0.46NS EA NA WA CSA 732
rs1925609891,2
--152485482(+) AACAAC/TTGATG 1 -- us2k10--------
rs48454421,2
C,F,A,H--152485545(+) TCATAA/GGATGC 1 -- us2k118Minor allele frequency- G:0.33NA EA NS WA CSA 788
rs1842416481,2
C--152485549(+) AGGATA/GCCCAC 1 -- us2k10--------
rs106664681,2
C--152485608(+) AAACGTTC/-TTCTT 1 -- cds11Minor allele frequency- -:0.50NA 2

HapMap Linkage Disequilibrium report for CRCT1 (152486978 - 152488486 bp)

Structural Variations
     Database of Genomic Variants (DGV) 6 variations for CRCT1:    About this table    
Variant IDTypeSubtypePubMed ID
nsv518413CNV Loss19592680
nsv524241CNV Loss19592680
esv2750810CNV Gain17911159
dgv131e1CNV Complex17122850
dgv130e1CNV Complex17122850
dgv129e1CNV Complex17122850

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing CRCT1
DNA2.0 Custom Variant and Variant Library Synthesis for CRCT1

(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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Find genes that share disorders with CRCT1           About GenesLikeMe

Genetic Association Database (GAD): CRCT1

Export disorders for CRCT1 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 CRCT1 gene integrated from 10 sources:
(articles sorted by number of sources associating them with CRCT1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Identification of human epidermal differentiation complex (EDC)- encoded genes by subtractive hybridization of entire YACs to a gridded keratinocyte cDNA library. (PubMed id 11230159)1, 2, 3 Marenholz I....Mischke D. (Genome Res. 2001)
  2. Meta-analysis of genome-wide association studies of asthma in ethnically diverse North American populations. (PubMed id 21804549)1, 4 Torgerson D.G....Nicolae D.L. (Nat. Genet. 2011)
  3. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
  4. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. (PubMed id 23251661)1 Comuzzie A.G....Butte N.F. (PLoS ONE 2012)
  5. Web-based, participant-driven studies yield novel genetic associations for common traits. (PubMed id 20585627)4 Eriksson N....Mountain J. (PLoS Genet. 2010)
  6. A human protein-protein interaction network: a resource for annotating the proteome. (PubMed id 16169070)1 Stelzl U.... Wanker E.E. (Cell 2005)
  7. 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)
  8. 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: 54544 HGNC: 29875 AceView: C1orf42 Ensembl:ENSG00000169509 euGenes: HUgn54544
ECgene: CRCT1 H-InvDB: CRCT1

(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 CRCT1 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 CRCT1 gene:
Search GeneIP for patents involving CRCT1

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, eBioscience, 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 inGenious Targeting Laboratory, genOway)
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 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CRCT1
 SwitchGear 3'UTR luciferase reporter plasmids for CRCT1
 SwitchGear Promoter luciferase reporter plasmids for CRCT1
 ThermoFisher Antibody for CRCT1
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CRCT1
 inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CRCT1
 inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CRCT1
 LSBio Antibodies in human, mouse, rat for CRCT1
Customized transgenic rodents for:
 Humanization
 Biomarker expression
 Off-target effect monitoring
 Translational medicine
 Tissue-specific gene expresssion
 Time-controlled gene expresssion
 Browse compounds at ApexBio
 Search Addgene for plasmids for CRCT1
  Search eBioscience for proteins for CRCT1
  Search eBioscience for elisas for CRCT1
  eBioscience FlowRNA Probe Sets
       
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

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