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IGLC6 Gene

pseudogene   GIFtS: 22
GCID: GC22P023324

Immunoglobulin Lambda Constant 6 (Kern+Oz- Marker, Gene/Pseudogene)

(Previous name: immunoglobulin lambda constant 6 (Kern+Oz- marker))
(Previous symbol: IGLC)
  Search for IGLC6
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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Immunoglobulin Lambda Constant 6 (Kern+Oz- Marker, Gene/Pseudogene)1 2
IGLC1 2
Immunoglobulin Lambda Constant 6 (Kern+Oz- Marker)1

External Ids:    HGNC: 58601   Entrez Gene: 35422   Ensembl: ENSG000002220377   UniProtKB: P0CF743   
ORGUL members:         

Export aliases for IGLC6 gene to outside databases

Previous GC identifers: GC22U990030 GC22P021586 GC22P021595 GC22P021605 GC22P021615 GC22P021625 GC22P021636 GC22P021646 GC22P021659 GC22P021672 GC22P023267 GC22P006229 GC22P023273 GC22P023279 GC22P023284 GC22P023289 GC22P023293 GC22P023308


(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 IGLC6 Gene:
IGLC6 (immunoglobulin lambda constant 6 (Kern+Oz- marker, gene/pseudogene)) is a pseudogene, and is affiliated with the lncRNA class. GO annotations related to this gene include antigen binding.


(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:
   Search for regulatory transcription factor binding sites for IGLC6
         Other transcription factors

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   Search Chromatin IP Primers for IGLC6

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat IGLC6


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

Entrez Gene cytogenetic band: 22q11.2   Ensembl cytogenetic band:  22q11.22   HGNC cytogenetic band: 22q11.2

IGLC6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IGLC6 gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22P023324:  view genomic region     (about GC identifiers)

Start:
23,261,707 bp from pter      End:
23,262,030 bp from pter
Size:
324 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,
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UniProtKB/Swiss-Prot: LAC6_HUMAN, P0CF74 (See protein sequence)
Recommended Name: Ig lambda-6 chain C region  
Size: 106 amino acids; 11277 Da
Miscellaneous: Displays the following serological isotype: Mgc-, Ke+, and Oz-. Mgc- has Ala-6, Ser-8 and Thr-57;
Ke+ has Gly-46 and Oz- has Arg-83

Explore the universe of human proteins at neXtProt for IGLC6: NX_P0CF74

Explore proteomics data for IGLC6 at MOPED


See IGLC6 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

Reactome Protein details: P0CF74

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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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HGNC Gene Families:
IGL: Immunoglobulins / IGL locus

4 InterPro protein domains:
 IPR013783 Ig-like_fold
 IPR003597 Ig_C1-set
 IPR007110 Ig-like_dom
 IPR003006 Ig/MHC_CS

Graphical View of Domain Structure for InterPro Entry P0CF74

ProtoNet protein and cluster: P0CF74

UniProtKB/Swiss-Prot: LAC6_HUMAN, P0CF74
Similarity: Contains 1 Ig-like (immunoglobulin-like) domain


Find genes that share domains with IGLC6           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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Molecular Function:
     Genatlas biochemistry entry for IGLC6:
immunoglobulin,lambda,constant segment 6 (Kern+Oz-marker)

     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003823antigen binding IEA--
     
Find genes that share ontologies with IGLC6           About GenesLikeMe


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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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Gene Ontology (GO): 3 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005576extracellular region TAS--
GO:0005615extracellular space IDA--
GO:0005886plasma membrane TAS--

Find genes that share ontologies with IGLC6           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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SuperPaths for IGLC6 About   (see all 8)  
See pathways by source

SuperPathContained pathways About
1Creation of C4 and C2 activators
Creation of C4 and C2 activators0.85
FCGR activation0.54
Initial triggering of complement0.85
Role of phospholipids in phagocytosis0.53
Classical antibody-mediated complement activation0.82
FCERI mediated NF-kB activation0.32
Complement cascade0.68
2Antigen Activates B Cell Receptor Leading to Generation of Second Messengers
FCERI mediated Ca+2 mobilization0.47
FCERI mediated MAPK activation0.45
Antigen Activates B Cell Receptor Leading to Generation of Second Messengers0.47
3Fcgamma receptor (FCGR) dependent phagocytosis
Regulation of actin dynamics for phagocytic cup formation0.77
Fcgamma receptor (FCGR) dependent phagocytosis0.77
4PI-3K cascade
Role of LAT2/NTAL/LAB on calcium mobilization0.80
Fc epsilon receptor (FCERI) signaling0.64
5Binding and Uptake of Ligands by Scavenger Receptors
Binding and Uptake of Ligands by Scavenger Receptors0.53
Scavenging of Heme from Plasma0.53


Find genes that share SuperPaths with IGLC6           About GenesLikeMe

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways


Selected Reactome Pathways for IGLC6 (see all 13)
    FCERI mediated MAPK activation
Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
FCERI mediated NF-kB activation
FCGR activation
Scavenging of heme from plasma


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Interactions:

    Search GeneGlobe Interaction Network for IGLC6

1 Interacting protein for IGLC6 (P0CF743) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
IGHG2P018593I2D: score=1 
About this table

Gene Ontology (GO): Selected biological process terms (see all 6):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006956complement activation TAS--
GO:0006958complement activation, classical pathway TAS--
GO:0038095Fc-epsilon receptor signaling pathway TAS--
GO:0038096Fc-gamma receptor signaling pathway involved in phagocytosis TAS--
GO:0045087innate immune response TAS--

Find genes that share ontologies with IGLC6           About GenesLikeMe



(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 Tocris compounds for IGLC6 (LAC6)



(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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1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000410078
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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IGLC6 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
IGLC6 Expression
About this image

IGLC6 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

IGLC6 Protein Expression
    Custom PCR Arrays for IGLC6
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In Situ
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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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  --

ENSEMBL Gene Tree for IGLC6 (if available)
TreeFam Gene Tree for IGLC6 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for IGLC6 gene
Selected SIMAP similar genes for IGLC6 using alignment to 1 protein entry:     LAC6_HUMAN(see all similar genes):
DKFZp667J0810    IGLC2    IGLC3    IgLC-rG    IGL@    IGLC7
C1 segment    DKFZp781M0386    IGLC1    IGLL5    IGLL1    IGK@
IGKC    IGHG2    DKFZp686E23209    IGHM    HLA-DQA1    B2M

Find genes that share paralogs with IGLC6           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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Polymorphic Variants from UniProtKB/Swiss-Prot
LAC6_HUMAN, P0CF74: Only the allele IGLC6*01 is functional. The other existing alleles are pseudogenes

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing IGLC6
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(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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  --

(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 IGLC6 gene integrated from 10 sources:
(articles sorted by number of sources associating them with IGLC6)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The DNA sequence of human chromosome 22. (PubMed id 10591208)1, 2 Dunham I.... Wright H. (Nature 1999)
  2. Human immunoglobulin C lambda 6 gene encodes the Kern+Oz-lambda chain and C lambda 4 and C lambda 5 are pseudogenes. (PubMed id 3122211)1, 2 Dariavach P.... Lefranc M.P. (Proc. Natl. Acad. Sci. U.S.A. 1987)
  3. Clustered arrangement of immunoglobulin lambda constant region genes in man. (PubMed id 6273747)1, 2 Hieter P.A.... Leder P. (Nature 1981)
  4. Recognition of immunoglobulins by Fcgamma receptors. (PubMed id 11955599)1 Radaev S. and Sun P. (Mol. Immunol. 2002)
  5. Physicochemical and functional characterization of the C1r subunit of the first complement component. (PubMed id 814163)1 Ziccardi R.J. and Cooper N.R. (J. Immunol. 1976)

(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: 3542 HGNC: 5860 Ensembl:ENSG00000222037 euGenes: HUgn3542 ECgene: IGLC6
H-InvDB: IGLC6

(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 IGLC6 Pharmacogenomics, SNPs, Pathways
IMGT entry for IGLC6 The international ImMunoGeneTics information system® specializing in Immunoglobulins (IG), T cell receptors (TR), Major Histocompatibility Complex (MHC) and related proteins of the immune system (RPI) of human and other vertebrate species.
IMGT/GENE-DBhttp://www.imgt.org/IMGT_GENE-DB/GENElect?query=2+IGLC6&species=Homo+sapiens

(Patent information from GeneIP,
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Patent Information for IGLC6 gene:
Search GeneIP for patents involving IGLC6

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
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The GeneCards human gene database gene index: 1 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

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