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IGK@ Cluster

gene cluster   GIFtS: 32

GC02P089891
immunoglobulin kappa locus
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
immunoglobulin kappa locus1 2     MGC404262
IGK1 2     FLJ262962
MGC273762     MGC226452
MGC719902     

External Ids:    HGNC: 57151   Entrez Gene: 508022   UniProtKB: Q6P5S84   UniProtKB: Q6PIL84   UniProtKB: Q6PJF24   

Export aliases for IGK@ gene to outside databases

Previous GC identifers: GC02U990232 GC02M089561 GC02M089890


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

Gene Wiki entry for IGK@

(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 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for IGK@
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for IGK@

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 


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

Entrez Gene cytogenetic band: 2p12   HGNC cytogenetic band: 2p11.2

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

GeneLoc gene densities for chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P089891:  view genomic region     (about GC identifiers)

Start:
89,890,568 bp from pter
End:
90,274,235 bp from pter
Size:
383,668 bases
Orientation:
plus strand
IGK@ has overlapping exons with:
ENSG00000239571 IGKV2D-40 ENSG00000253191 ENSG00000253127 ENSG00000232747 ENSG00000253501 ENSG00000239975 ENSG00000253999 IGKV2D-36
RefSeq DNA sequence:
NC_000002.11  NT_022184.15  NT_032994.6  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/TrEMBL: Q6P5S8 (See protein sequence)
Recommended Name: IGK@ protein  
Size: 236 amino acids; 25773 Da
PDB structures from and Proteopedia :
2NXY (3D)    2NY1 (3D)    2NY3 (3D)    2NY6 (3D)    

UniProtKB/TrEMBL: Q6PIL8 (See protein sequence)

Recommended Name: IGK@ protein  
Size: 236 amino acids; 25834 Da
PDB structures from and Proteopedia :
3DVN (3D)    

UniProtKB/TrEMBL: Q6PJF2 (See protein sequence)

Recommended Name: IGK@ protein  
Size: 235 amino acids; 25521 Da
PDB structures from and Proteopedia :
2AGJ (3D)    

Explore the universe of human proteins at neXtProt for IGK@: NX_Q6PJF2 


Human Recombinant Proteins 

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Antibodies for IGK@: 
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Assays for IGK@: 
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Browse ELISAs and CLIAs at Uscn 


(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

IGK@ for domains           About GeneDecksing

5/6 InterPro domains/families (see all 6):
 IPR007110 Ig-like
 IPR003006 Ig/MHC_CS
 IPR003596 Ig_V-set_sub
 IPR013783 Ig-like_fold
 IPR013106 Ig_V-set

Graphical View of Domain Structure for InterPro Entry Q6P5S8
Graphical View of Domain Structure for InterPro Entry Q6PIL8
Graphical View of Domain Structure for InterPro Entry Q6PJF2

ProtoNet protein and cluster: Q6P5S8

2 Blocks protein families:
IPB003596 Immunoglobulin V-type
IPB003599 Immunoglobulin subtype



(According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
About This Section

Inhib.
RNA:
    
Browse for Gene Knock-down Tools from Millipore
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Browse siRNA at Sigma-Aldrich
Browse shRNA at Sigma-Aldrich
Browse OriGene 29mer shRNA kits
Browse OriGene siRNA
Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of IGK@ 
miRNA:Browse microRNA Mimics at Sigma-Aldrich
Browse microRNA target validation systems at Sigma-Aldrich 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of IGK@ 
Search SABiosciences for Assays for microRNAs that regulate IGK@

Gene
Editing:
Browse CompoZr Knockout ZFN at Sigma-Aldrich 

Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
Browse iPSC Reprogramming Factors at Sigma-Aldrich
Browse OriGene untagged/tagged cDNA clones in CMV expression vector
Browse 3'-UTR reporter clones for miRNA target validation 
Browse MicroRNA Expression Plasmids 
GenScript Custom cDNA clone Services for IGK@ 
Browse Sino Biological Human cDNA Clones

Cell
Lines:
  
GenScript Custom overexpressing Cell Line Services for IGK@ 


(Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
About This Section


IGK@ for pathways           About GeneDecksing

5/7 Millipore Pathways for IGK@ (see all 7)
    Immune response Classic complement pathway
Immune response BCR pathway
Immune response CD16 signaling in NK cells
Signal transduction IP3 signaling
Immune response IL-4 signaling pathway

    SABiosciences Custom Pathway-Focused PCR Arrays for IGK@ 

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for IGK@

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section
Browse Small Molecules at Sigma-Aldrich
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for IGK@


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Millipore,
siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
About This Section

Inhib.
RNA:
     
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Browse siRNA at Sigma-Aldrich
Browse shRNA at Sigma-Aldrich
Browse OriGene 29mer shRNA kits
Browse OriGene siRNA
Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of IGK@ 
miRNA: Browse microRNA Mimics at Sigma-Aldrich
Browse microRNA target validation systems at Sigma-Aldrich 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of IGK@ 
Search SABiosciences for Assays for microRNAs that regulate IGK@
Clones: Browse FLAG tag genes at Sigma-Aldrich
Browse OriGene untagged/tagged cDNA clones in CMV expression vector
Browse 3'-UTR reporter clones for miRNA target validation 
Browse OriGene MicroRNA Expression Plasmids 
GenScript Custom cDNA clone Services for IGK@ 
Primers:Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs 
Search SABiosciences RT2 qPCR Primer Assays for IGK@

Additional cDNA sequence: 

AB006847.1 AB022651.1 AB022653.1 AB022654.1 AB022656.1 AB027444.1 AB030640.1 AB063935.1 
AB063948.1 AB063953.1 AB063955.1 AB063960.1 AB064043.1 AB064044.1 AB064046.1 AB064049.1 
AB064053.1 AB064054.1 AB064056.1 AB064062.1 AB064064.1 AB064074.1 AB064082.1 AB064084.1 
AB064085.1 AB064089.1 AB064091.1 AB064092.1 AB064093.1 AB064121.1 AB084082.1 AB095273.1 
AB095283.1 AB245096.1 AB274407.1 AB274411.1 AB363262.1 AB363267.1 AB363271.1 AB363306.1 
AB363308.1 AF029989.1 AF039298.1 AF078947.1 AF078948.1 AF082203.1 AF090357.1 AF098363.1 
AF098365.1 AF103384.1 AF103390.1 AF103406.1 AF103412.1 AF103423.1 AF103443.1 AF103461.1 
AF103494.1 AF103502.1 AF103535.1 AF103540.1 AF103550.1 AF103552.1 AF103553.1 AF103575.1 
AF115362.1 AF234256.1 AF301488.1 AF301489.1 AF306387.1 AF338917.1 AF338918.1 AF338920.1 
AF338921.1 AF394738.1 AF402948.1 AF417849.1 AF485468.1 AJ005976.1 AJ241396.1 AJ241402.1 
AJ241411.1 AJ294735.1 AJ388645.1 AJ388654.1 AK129779.1 AK129807.1 AM040513.1 AM040531.1 
AM040584.1 AM181157.1 AM181162.1 AY043095.1 AY043126.1 AY043144.1 AY043163.1 AY043165.1 
AY050707.1 AY180390.1 AY180393.1 AY247652.1 AY247654.1 AY281339.1 AY365334.1 AY365338.1 
AY422529.1 AY422537.1 AY423217.1 AY423218.1 AY423219.1 AY423220.1 AY423221.1 AY423254.1 
AY466501.1 AY505541.1 AY515005.1 AY539809.1 AY560603.1 AY621625.1 AY685276.1 AY685280.1 
AY685357.1 AY685359.1 AY866998.1 AY867037.1 AY867052.1 AY867053.1 AY867079.1 AY867102.1 
AY867131.1 AY867162.1 AY867181.1 AY867190.1 AY867195.1 AY867249.1 AY867271.1 AY867273.1 
AY867280.1 AY867314.1 AY867339.1 AY867374.1 AY867379.1 AY867380.1 AY867383.1 AY867391.1 
AY867396.1 AY867400.1 AY867417.1 AY882580.1 AY894695.1 AY941996.1 AY942011.1 AY942012.1 
AY942018.1 AY942042.1 AY942064.1 AY942093.1 AY942118.1 AY942129.1 AY942133.1 AY955071.1 
AY960866.1 AY960871.1 AY998683.1 AY998689.1 BC018761.1 BC062704.1 BC070336.1 CR607699.1 
DQ100616.1 DQ100618.1 DQ100621.1 DQ100629.1 DQ100632.1 DQ100635.1 DQ100643.1 DQ100644.1 
DQ100650.1 DQ101015.1 DQ101022.1 DQ101024.1 DQ101025.1 DQ101026.1 DQ101029.1 DQ101031.1 
DQ101039.1 DQ101056.1 DQ101057.1 DQ101060.1 DQ101064.1 DQ101071.1 DQ101078.1 DQ101102.1 
DQ101104.1 DQ101115.1 DQ101133.1 DQ101148.1 DQ101159.1 DQ187507.1 DQ187522.1 DQ187527.1 
DQ187566.1 DQ187687.1 DQ187692.1 DQ187727.1 DQ187737.1 DQ322817.1 DQ322833.1 DQ322855.1 
DQ322856.1 DQ322857.1 DQ322858.1 DQ322963.1 DQ322982.1 DQ497188.1 EF058278.1 EF589401.1 
EF589409.1 EF589411.1 EF589419.1 EF589421.1 EF589425.1 EF589443.1 EF589452.1 EF589464.1 
EF589472.1 EF589483.1 EF589509.1 EF589548.1 EF710807.1 EF710808.1 EF710933.1 EF710934.1 
EF710935.1 EU117416.1 EU599323.1 EU599328.1 EU599329.1 EU599336.1 EU599338.1 FJ208778.1 
FJ385487.1 FJ481092.1 FJ773247.1 HM214898.1 HM451463.1 HM451465.1 L01413.1 L02267.1 
L03168.1 L03172.1 L03555.1 L08899.1 L09099.1 L09101.1 L10150.1 L12066.1 
L22157.1 L26891.1 L26893.1 L28047.1 L39957.1 L40650.1 L40654.1 L40667.1 
L40668.1 L40670.1 L40676.1 L40683.1 L40695.1 L40700.1 L40708.1 L40716.1 
L40726.1 L43086.2 M95721.1 M97805.1 M99597.1 S56182.1 S64995.1 S79919.1 
U03484.1 U07990.1 U21248.1 U43767.1 U43768.1 U86794.1 X53612.1 X58083.1 
X58089.1 X58091.1 X58092.1 X58094.1 X58095.1 X72423.1 X72443.1 X72460.1 
X72471.1 X84341.1 X87445.1 X93707.1 X93708.1 X93710.1 X93712.1 X93716.1 
X93720.1 X93777.1 X98965.1 X98966.1 X98968.1 X98971.1 X98977.1 X98979.1 
X98981.1 X98982.1 X98983.1 Y12697.1 Y14868.1 Y14869.1 Y14871.1 Y17788.1 
Z14247.1 Z15074.1 Z15075.1 Z15077.1 Z15078.1 Z15080.1 Z18838.1 Z18842.1 
Z27175.1 Z68944.1 Z68949.1 Z68952.1 Z68967.1 

24/235 DOTS entries (see all 235):

DT.95322415  DT.305209  DT.100033319  DT.95339737  DT.95244015  DT.99944076  DT.95261924  DT.100061049 
DT.100709879  DT.95324819  DT.91705797  DT.120984208  DT.97759703  DT.95243710  DT.95243711  DT.95244004 
DT.92004244  DT.92475934  DT.91705794  DT.91970838  DT.100855511  DT.100709865  DT.95144795  DT.95243999 

highest scoring ESTs for IGK@:

AA455672 AA455729 AI699390 AW469787 BE439582 BE504798 BF334063 BF509891 BG925198 BU431503 

Unigene Cluster for IGK@:

Immunoglobulin kappa locus
Hs.707648  [show with all ESTs]
Unigene Representative Sequence: BM923616


GeneLoc Exon Structure


(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Primers from OriGene and/or SABiosciences )
About This Section

IGK@ expression in normal and diseased human tissues

1  / 2

4 probe-sets matching IGK@ gene

Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
211644_x_at2 U133-A 10 0.73 0.44 -- -- -- -- -- -- --
211643_x_at2 U133-A 8 0.27 0.26 -- -- -- -- -- -- --
211644_x_at2 U133Plus2 10 0.73 0.44 -- -- -- -- -- -- --
211643_x_at2 U133Plus2 8 0.27 0.26 -- -- -- -- -- -- --
About this table
Data from Genenote  (Publications) and GNF BioGPS
    About these images
IGK@ gene expression
IGK@ gene electronic northern expression
IGK@ gene sage expression
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.707648
Primers:Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs 
Search SABiosciences RT2 qPCR Primer Assays for IGK@
    SABiosciences Custom PCR Arrays for IGK@ 


(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section
  --

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

(SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
About This Section
Search QIAGEN SeqTarget long-range PCR primers for resequencing for IGK@ 

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
About This Section

IGK@ for disorders           About GeneDecksing

2 Novoseek disease relationships for IGK@ gene

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
leukemia lymphocytic chronic 65.1 2 16076869 (1), 16622520 (1)
minimal residual disease 62.2 1 12970784 (1)
About this table

Genetic Association Database (GAD): IGK@
Human Genome Epidemiology (HuGE) Navigator: IGK@ (2 documents)

Export disorders and mutations for IGK@ gene to outside databases

(Possibly Related Articles in Doctor's Guide)
About This Section
  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
About This Section

10/17 PubMed articles for IGK@ gene, integrated from 7 sources (see all 17):
(articles sorted by number of sources associating them with IGK@)
  1. Immunoglobulin KM and GM gene polymorphisms modify the clinical presentation of primary Sjogren's syndrome. (PubMed id 15517630)1, 4 Pertovaara M....Pandey J.P. (2004)
  2. Analysis of expressed and non-expressed IGK locus rearrangements in chronic lymphocytic leukemia. (PubMed id 16622520)1, 7 Belessi C....Laoutaris N. (2005)
  3. Ig-free light chains play a crucial role in murine ma st cell-dependent colitis and are associated with human inflammatory bowel dise ases. (PubMed id 20505143)1 Rijnierse A....Kraneveld A.D. (2010 Jul 1)
  4. The polymorphisms on Igkappa gene are related to susceptibility of breast cancer and gastric cancer. (PubMed id 19072568)1 Hu D....Ya C. (2008)
  5. Analysis of immunoglobulin variable kappa gene mutations in cutaneous B-cell lymphoma. (PubMed id 17600686)1 Bortoletto G....Alaibac M. (2007)
  6. Allelic 'choice' governs somatic hypermutation in vivo at the immunoglobulin kappa-chain locus. (PubMed id 17546032)1 Fraenkel S....Bergman Y. (2007)
  7. Four crystal forms of a Bence-Jones protein. (PubMed id 16508097)1 Makino D.L....McPherson A. (2005)
  8. Unraveling the consecutive recombination events in the human IGK locus. (PubMed id 15356136)1 Langerak A.W....van Dongen J.J. (2004)
  9. A significant fraction of conserved noncoding DNA in human and mouse consists of predicted matrix attachment regions. (PubMed id 12615002)1 Glazko G.V....Shabalina S.A. (2003)
  10. A monoclonal V kappa l light chain responsible for incomplete proximal tubulopathy. (PubMed id 12552516)1 Decourt C....Cogne M. (2003)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Disorders
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)
About This Section
Entrez Gene: 50802 HGNC: 5715 euGenes: HUgn50802 ECgene: IGK@ H-InvDB: IGK@

(According to HUGE)
About This Section
  --

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
ATLAS Chromosomes in Cancer entry for IGK@ Genetics and Cytogenetics in Oncology and Haematology
IMGT entry for IGK@ 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.

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from XenneX, Inc.)
About This Section
Patent Information for IGK@ gene:
Search GeneIP for patents involving IGK@

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
About This Section

 Millipore Custom Antibody & Bulk Services
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 QIAGEN Custom miScript Target Protector blocks miRNA-binding site of IGK@
 Search QIAGEN SeqTarget long-range PCR primers for resequencing for IGK@
 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays
 Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of IGK@
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