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CRYGN Gene

protein-coding   GIFtS: 46
GCID: GC07M151125

Crystallin, Gamma N

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

Quality score for the ORGUL clustered with this gene is 3

Aliases
Crystallin, Gamma N1 2
gamma-N-crystallin2
Gamma-Crystallin N2
gammaN-crystallin2
Gamma-N-crystallin3

External Ids:    HGNC: 204581   Entrez Gene: 1550512   Ensembl: ENSG000001273777   OMIM: 6096035   UniProtKB: Q8WXF53   
ORGUL members:         

Export aliases for CRYGN gene to outside databases

Previous GC identifers: GC07M149373 GC07M150440 GC07M150517 GC07M150564 GC07M150757 GC07M144938


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CRYGN Gene:
The beta and gamma crystallins are evolutionarily related families of proteins that are localized to the
refractive structure of the eye lens. The protein encoded by this gene is unique in that it has both beta and
gamma crystallin protein motifs. (provided by RefSeq, Jul 2008)

GeneCards Summary for CRYGN Gene:
CRYGN (crystallin, gamma N) is a protein-coding gene. An important paralog of this gene is CRYBB3.




(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_000007.13  NT_007933.16  NC_018918.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CRYGN gene promoter:
         STAT1   AML1a   AP-4   C/EBPalpha   FOXL1   CHOP-10   PPAR-gamma1   PPAR-gamma2   Zic3   TGIF   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): CRYGN promoter sequence
   Search Chromatin IP Primers for CRYGN

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


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

Entrez Gene cytogenetic band: 7q36.1   Ensembl cytogenetic band:  7q36.1   HGNC cytogenetic band: 7q36.1

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

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M151125:  view genomic region     (about GC identifiers)

Start:
151,125,921 bp from pter      End:
151,137,899 bp from pter
Size:
11,979 bases      Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 150,456,639-150,466,682     

(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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: CRGN_HUMAN, Q8WXF5 (See protein sequence)
Recommended Name: Gamma-crystallin N  
Size: 182 amino acids; 20624 Da
Subunit: Monomer (By similarity)
Caution: In contrast to the orthologous protein found in other species, the C-terminal part differs and lacks the
fourth beta/gamma crystallin 'Greek key' domain. Moreover, its non-specific tissue specificity suggests that it
may have lost its function (PubMed:15853812)
Secondary accessions: Q496G6
Alternative splicing: 2 isoforms:  Q8WXF5-1   Q8WXF5-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CRYGN: NX_Q8WXF5

Explore proteomics data for CRYGN at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CRYGN Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_653328.1  
    ENSEMBL proteins: 
     ENSP00000338613   ENSP00000420157  

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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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    2 InterPro protein domains:
     IPR001064 Beta/gamma_crystallin
     IPR011024 G_crystallin-rel

    Graphical View of Domain Structure for InterPro Entry Q8WXF5

    ProtoNet protein and cluster: Q8WXF5

    2 Blocks protein domains:
    IPB001064 Beta and gamma crystallin
    IPB011024 Gamma-crystallin related


    UniProtKB/Swiss-Prot: CRGN_HUMAN, Q8WXF5
    Similarity: Belongs to the beta/gamma-crystallin family
    Similarity: Contains 3 beta/gamma crystallin 'Greek key' domains


    Find genes that share domains with CRYGN           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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:
       genOway: Develop your customized and physiologically relevant rodent model for CRYGN

    miRNA
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    miRTarBase miRNAs that target CRYGN:
    hsa-mir-335-5p (MIRT017597)

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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 COMPARTMENTS: 

    CompartmentConfidence
    cytosol2
    extracellular2
    nucleus1

    (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 CRYGN
    Interactions:

        Search GeneGlobe Interaction Network for CRYGN

    (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 CRYGN (CRGN)



    (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 CRYGN gene: 
    NM_144727.1  

    Unigene Cluster for CRYGN:

    Crystallin, gamma N
    Hs.647104  [show with all ESTs]
    Unigene Representative Sequence: BM548090
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000476631(uc003wkg.3) ENST00000462809 ENST00000337323(uc003wke.3)
    ENST00000491928(uc003wkf.3) ENST00000478106(uc010lqd.1)
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    Additional mRNA sequence: 

    AF445455.1 BC100878.2 BC100879.3 BC100880.2 BC100881.2 EF491784.1 

    2 DOTS entries:

    DT.97793177  DT.97807740 

    7 AceView cDNA sequences:

    NM_144727 AF445455 BU683519 BC043605 BM548090 CB993791 BI003328 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for CRYGN    About this scheme

    ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b · 5c
    SP1:              -     -                           
    SP2:                    -     -                     
    SP3:                                                


    ECgene alternative splicing isoforms for CRYGN

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


    CRYGN expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Eye (Sensory Organs)
             Lens
    CRYGN Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CRYGN Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.647104

    UniProtKB/Swiss-Prot: CRGN_HUMAN, Q8WXF5
    Tissue specificity: Not specifically expressed in eye

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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 CRYGN gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Crygn1 , 5 crystallin, gamma N1, 5 89.21(n)1
    89.93(a)1
      5 (11.93 cM)5
    2143011  NM_153076.21  NP_694716.21 
     247510035 
    chicken
    (Gallus gallus)
    Aves CRYGN1 crystallin, gamma N 70.74(n)
    61.87(a)
      428406  NM_001166674.2  NP_001160146.2 
    lizard
    (Anolis carolinensis)
    Reptilia CRYGN6
    crystallin, gamma N
    53(a)
    1 ↔ 1
    6(3937567-3950417)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia crygn1 crystallin, gamma N 76.26(n)
    77.7(a)
      100125131  NM_001122802.1  NP_001116274.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.292032 Transcribed sequence with weak similarity to protein more 76.47(n)    CB359117.1 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CRYGN gene
    CRYBB32  CRYGB2  CRYBA42  CRYBA12  CRYBB22  CRYGD2  CRYGA2  CRYBB12  
    CRYGC2  CRYBA22  CRYGS2  
    9 SIMAP similar genes for CRYGN using alignment to 1 protein entry:     CRGN_HUMAN:
    CRYGS    CRYBB3    CRYBA2    CRYGA    CRYGB    CRYGC
    CRYBA1    CRYGD    CRYBA4

    Find genes that share paralogs with CRYGN           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 CRYGN (see all 252)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs624797891,2
    C,F--151126556(+) TTTGCG/ACCAAA 1 -- ds50013Minor allele frequency- A:0.12NA 124
    rs1153344461,2
    F--151126625(+) AGGAAC/TGAAAA 1 -- ds50011Minor allele frequency- T:0.07WA 118
    rs588952871,2
    C,F--151126702(+) AACCTG/CTCTGT 1 -- ds50011Minor allele frequency- C:0.50WA 2
    rs1119684701,2
    F--151126790(+) AGATTC/TCAGCT 1 -- ds50011Minor allele frequency- T:0.50CSA 2
    rs78083691,2
    C,F,A,H--151126822(+) TCAGTG/ACTCCA 1 -- ds500118Minor allele frequency- A:0.15NS EA NA CSA WA 2340
    rs1915091871,2
    --151126838(+) ATTCAA/TCAACA 1 -- ds50010--------
    rs1170913081,2
    F--151126840(+) TCATCA/GACATC 1 -- ds50011Minor allele frequency- G:0.03EA 120
    rs117689681,2
    C,F,A,H--151126851(+) ATCACC/TATCAT 1 -- ds500119Minor allele frequency- T:0.07NS EA NA WA 2340
    rs1839898241,2
    --151126875(+) AGGTGA/CGAGAT 1 -- ds50010--------
    rs1133134481,2
    C,F--151126943(+) TTGGAC/TGGCTG 1 -- ds50012Minor allele frequency- T:0.05CSA WA 120

    HapMap Linkage Disequilibrium report for CRYGN (151125921 - 151137899 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for CRYGN:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv6006CNV Insertion18451855

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

    (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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    OMIM gene information: 609603    OMIM disorders: --


    Find genes that share disorders with CRYGN           About GenesLikeMe


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

    1. Gamma-N-crystallin and the evolution of the betagamma-crystallin superfamily in vertebrates. (PubMed id 15853812)1, 2 Wistow G.... Vihtelic T. (FEBS J. 2005)
    2. Non-EST-based prediction of novel alternatively spliced cassette exons with cell signaling function in Caenorhabditis elegans and human. (PubMed id 17452356)1 Leparc G.G. and Mitra R.D. (Nucleic Acids Res. 2007)
    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. (Genome Res. 2004)
    4. Human chromosome 7: DNA sequence and biology. (PubMed id 12690205)1 Scherer S.W.... Tsui L.-C. (Science 2003)
    5. 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)
    6. Genetics of crystallins: cataract and beyond. (PubMed id 19007775)9 Graw J. (Exp. Eye Res. 2009)

    (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: 155051 HGNC: 20458 AceView: CRYGN Ensembl:ENSG00000127377 euGenes: HUgn155051
    ECgene: CRYGN H-InvDB: CRYGN

    (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 CRYGN 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 CRYGN gene:
    Search GeneIP for patents involving CRYGN

    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, eBioscience, antibodies-online, 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 genOway)
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     antibodies-online antibodies for CRYGN (2 products)
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    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 , 7 Oct 2014

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