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IGKV1-39 Gene

protein-coding   GIFtS: 21

GC02M089620
immunoglobulin kappa variable 1-39 (gene/pseudogene)
(Previous name: immunoglobulin kappa variable 1-39 )
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)
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Aliases & Descriptions
immunoglobulin kappa variable 1-39 (gene/pseudogene)1 2
immunoglobulin kappa variable 1-391
IGKV1392
O12a2
O122

External Ids:    HGNC: 57401   Entrez Gene: 289302   Ensembl: ENSG000002423717   UniProtKB: P044313   

Export aliases for IGKV1-39 gene to outside databases

Previous GC identifers: GC02U990208 GC02M089400


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

  --

(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 IGKV1-39
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for IGKV1-39

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   Ensembl cytogenetic band:  2p11.2   HGNC cytogenetic band: 2p11.2

IGKV1-39 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IGKV1-39 gene location

GeneLoc gene densities for chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02M089620:  view genomic region     (about GC identifiers)

Start:
89,619,383 bp from pter
End:
89,619,904 bp from pter
Size:
522 bases
Orientation:
minus strand

(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/Swiss-Prot: KV123_HUMAN, P04431 (See protein sequence)
Recommended Name: Ig kappa chain V-I region Walker precursor  
Size: 129 amino acids; 14069 Da

Explore the universe of human proteins at neXtProt for IGKV1-39: NX_P04431 



ENSEMBL proteins: 
ENSP00000419058 


Human Recombinant Proteins 
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1 Gene Ontology (GO) cellular component term (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005576 extracellular region ----
About this table

IGKV1-39 for ontologies           About GeneDecksing



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(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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IGKV1-39 for domains           About GeneDecksing

4 InterPro domains/families:
 IPR007110 Ig-like
 IPR003596 Ig_V-set_sub
 IPR013783 Ig-like_fold
 IPR013106 Ig_V-set

Graphical View of Domain Structure for InterPro Entry P04431

ProtoNet protein and cluster: P04431

2 Blocks protein families:
IPB003596 Immunoglobulin V-type
IPB013106 Immunoglobulin V-set



(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 shRNA at Sigma-Aldrich
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Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of IGKV1-39 
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 IGKV1-39 
Search SABiosciences for Assays for microRNAs that regulate IGKV1-39

Gene
Editing:
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Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
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Cell
Lines:
  
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1 Gene Ontology (GO) molecular function term (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0003823 antigen binding ----
About this table

IGKV1-39 for ontologies           About GeneDecksing


(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

    SABiosciences Custom Pathway-Focused PCR Arrays for IGKV1-39 

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for IGKV1-39

1 Gene Ontology (GO) biological process term (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006955 immune response ----
About this table

IGKV1-39 for ontologies           About GeneDecksing



(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 IGKV1-39


(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 IGKV1-39 
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 IGKV1-39 
Search SABiosciences for Assays for microRNAs that regulate IGKV1-39
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 IGKV1-39 
Primers:Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs 
Search SABiosciences RT2 qPCR Primer Assays for IGKV1-39

highest scoring ESTs for IGKV1-39:

AW610222 CD704171 T89499 DQ100617 X72431 AF103509 AY043132 CB987053 DQ205177 CD701597 


GeneLoc Exon Structure

1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000498574

(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

IGKV1-39 expression in normal and diseased human tissues

1  / 3 Data from Genenote  (Publications) and GNF BioGPS
    About these images

IGKV1-39 gene expression
IGKV1-39 gene electronic northern expression
IGKV1-39 gene sage expression
About these images

CGAP SAGE TAG: --
Primers:Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs 
Search SABiosciences RT2 qPCR Primer Assays for IGKV1-39
    SABiosciences Custom PCR Arrays for IGKV1-39 


(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
ENSEMBL Gene Tree for IGKV1-39 (if available)

(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section
Paralogs for IGKV1-39 gene
IGKV1D-372  IGKV1D-82  ENSG000002420762  IGKV1D-132  IGKV1-62  IGKV1D-122  IGKV1-122  ENSG000002399752  
IGKV1-162  IGKV1-82  IGKV1-172  IGKV1-272  LOC6524932  IGKV1D-432  IGKV1D-162  IGKV1D-422  
IGKV1-52  IGKV1-372  IGKV1D-172  

IGKV1-39 for paralogs           About GeneDecksing


Pseudogenes
3 related pseudogenes



(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 IGKV1-39 

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

(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

3 PubMed articles for IGKV1-39 gene integrated from 7 sources:
(articles sorted by number of sources associating them with IGKV1-39)
  1. Phage display of a human antibody against Clostridium tetani toxin. (PubMed id 7926831)1 Esposito G....Traboni C. (1994)
  2. The human immunoglobulin kappa locus. Characterization of the duplicated O regions. (PubMed id 1907917)1 Pargent W....Zachau H.G. (1991)
  3. Immunoglobulin genes of the kappa light chain type from two human lymphoid cell lines are closely related. (PubMed id 6091049)2 Klobeck H.G.... Zachau H.G. (1984)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 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)
About This Section
Entrez Gene: 28930 HGNC: 5740 Ensembl:ENSG00000242371 euGenes: HUgn28930 ECgene: IGKV1-39
H-InvDB: IGKV1-39

(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
IMGT entry for IGKV1-39 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 IGKV1-39 gene:
Search GeneIP for patents involving IGKV1-39

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)
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