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CTXN2 Gene

protein-coding   GIFtS: 30
GCID: GC15P048483

Cortexin 2

  See CTXN2-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
Cortexin 21 2
cortexin-22

External Ids:    HGNC: 311091   Entrez Gene: 3996972   Ensembl: ENSG000002339327   UniProtKB: P0C2S03   

Export aliases for CTXN2 gene to outside databases

Previous GC identifers: GC15U900443 GC15P025316


(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 CTXN2 Gene:
CTXN2 (cortexin 2) is a protein-coding gene. Diseases associated with CTXN2 include cystoid macular edema. An important paralog of this gene is CTXN3.


(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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Regulatory elements:
   Regulatory transcription factor binding sites in the CTXN2 gene promoter:
         MEF-2A   POU2F1   ATF-2   Olf-1   FOXD3   aMEF-2   Nkx5-1   RSRFC4   
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CTXN2


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

Entrez Gene cytogenetic band: 15q21.1   Ensembl cytogenetic band:  15q21.1   HGNC cytogenetic band: 15q21.1

CTXN2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CTXN2 gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15P048483:  view genomic region     (about GC identifiers)

Start:
48,483,736 bp from pter      End:
48,495,953 bp from pter
Size:
12,218 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: CTXN2_HUMAN, P0C2S0 (See protein sequence)
Recommended Name: Cortexin-2  
Size: 81 amino acids; 8980 Da

Explore the universe of human proteins at neXtProt for CTXN2: NX_P0C2S0

Explore proteomics data for CTXN2 at MOPED


See CTXN2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001139140.1  
ENSEMBL proteins: 
 ENSP00000406145   ENSP00000445900  

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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:
 IPR020066 Cortexin

Graphical View of Domain Structure for InterPro Entry P0C2S0

ProtoNet protein and cluster: P0C2S0

UniProtKB/Swiss-Prot: CTXN2_HUMAN, P0C2S0
Similarity: Belongs to the cortexin family


Find genes that share domains with CTXN2           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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Phenotypes:
     1 GenomeRNAi human phenotype for CTXN2:
 Decreased Wnt reporter activit 

Animal Models:
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(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 UniProtKB/Swiss-Prot
CTXN2_HUMAN, P0C2S0: Membrane; Single-pass membrane protein (Potential)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol2
extracellular1
nucleus1
plasma membrane1

Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0016021integral component of membrane IEA--
GO:0031224intrinsic component of membrane ----

Find genes that share ontologies with CTXN2           About GenesLikeMe


(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 CTXN2
Interactions:

    Search GeneGlobe Interaction Network for CTXN2

(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
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Browse Tocris compounds for CTXN2



(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 CTXN2 gene: 
NM_001145668.1  

2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000417307(uc001zwm.1) ENST00000541248
miRNA
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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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CTXN2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GTTACTGCTC
CTXN2 Expression
About this image

CTXN2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

CTXN2 Protein Expression
    Custom PCR Arrays for CTXN2
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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)
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This gene was present in the common ancestor of chordates.

Orthologs for CTXN2 gene from Selected species (see all 9)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Ctxn21 , 5 cortexin 21, 5 86.83(n)1
95.06(a)1
  2 (61.21 cM)5
3814181  NM_001162934.11  NP_001156406.21 
 1251366925 
chicken
(Gallus gallus)
Aves LOC1008594951 cortexin-2-like 83.95(n)
90.12(a)
  100859495  XM_004943801.1  XP_004943858.1 
zebrafish
(Danio rerio)
Actinopterygii ctxn21 cortexin 2 65(n)
65(a)
  556348  NM_001202433.1  NP_001189362.1 


ENSEMBL Gene Tree for CTXN2 (if available)
TreeFam Gene Tree for CTXN2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for CTXN2 gene
CTXN32  CTXN12  
2 SIMAP similar genes for CTXN2 using alignment to 1 protein entry:     CTXN2_HUMAN:
CTXN3    CTXN1

Find genes that share paralogs with CTXN2           About GenesLikeMe



(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 CTXN2 (see all 175)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 15 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1410901941,2
--48481887(+) TTTTTA/GTAACA 1 -- us2k10--------
rs1818458691,2
--48481914(+) AGAATA/GATAGA 1 -- us2k10--------
rs1865101311,2
--48481921(+) TAGATA/GGAATA 1 -- us2k10--------
rs1469639111,2
--48482128(+) AGTCTA/CCTGAG 1 -- us2k10--------
rs1164562381,2
C,F--48482301(+) ACTCCT/CGGCTG 1 -- us2k11Minor allele frequency- C:0.20WA 118
rs1449244081,2
--48482392(+) CCCAAA/CCCCAC 1 -- us2k10--------
rs1897177241,2
--48482475(+) CTGTTA/CCAGCC 1 -- us2k10--------
rs1823349431,2
--48482755(+) AGTTTC/GTCTTC 1 -- us2k10--------
rs1861666281,2
--48482834(+) ATTCTA/GTATCT 1 -- us2k10--------
rs1914213611,2
--48482983(+) TTTGTG/TGAAAC 1 -- us2k10--------

HapMap Linkage Disequilibrium report for CTXN2 (48483736 - 48495953 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for CTXN2: --
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing CTXN2
DNA2.0 Custom Variant and Variant Library Synthesis for CTXN2

(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 CTXN2:    
About MalaCards
cystoid macular edema

2 diseases from the University of Copenhagen DISEASES database for CTXN2:
Cystoid macular edema     Loeys-Dietz syndrome

Find genes that share disorders with CTXN2           About GenesLikeMe


Export disorders for CTXN2 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 CTXN2 gene integrated from 10 sources:
(articles sorted by number of sources associating them with CTXN2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)1, 2 Zody M.C....Nusbaum C. (Nature 2006)
  2. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (BMC Genomics 2007)

(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: 399697 HGNC: 31109 Ensembl:ENSG00000233932 euGenes: HUgn399697 ECgene: CTXN2
H-InvDB: CTXN2

(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 CTXN2 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 CTXN2 gene:
Search GeneIP for patents involving CTXN2

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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