Igkc (immunoglobulin kappa constant) - Rat Genome Database

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Gene: Igkc (immunoglobulin kappa constant) Mus musculus
Analyze
Symbol: Igkc
Name: immunoglobulin kappa constant
RGD ID: 10783
MGI Page MGI
Description: Acts upstream of or within B cell differentiation. Predicted to be located in extracellular region and plasma membrane. Predicted to be part of IgG immunoglobulin complex. Is expressed in several structures, including alimentary system; brain; genitourinary system; hemolymphoid system gland; and liver and biliary system. Orthologous to human IGKC (immunoglobulin kappa constant).
Type: gene (Ensembl: IG_C_gene)
RefSeq Status: VALIDATED
Previously known as: Igk-C; immunoglobulin kappa chain, constant region
RGD Orthologs
Human
Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39670,703,419 - 70,703,738 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl670,703,419 - 70,703,950 (+)EnsemblGRCm39 Ensembl
GRCm38670,726,435 - 70,726,754 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl670,726,435 - 70,726,966 (+)EnsemblGRCm38mm10GRCm38
MGSCv37670,676,429 - 70,676,748 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera672,811,869 - 72,812,188 (+)NCBICelera
Cytogenetic Map6C1NCBI
cM Map632.04NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
2. MGD IEA MGD IEA
3. Mouse MP Annotation Import Pipeline RGD automated import pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:103004   PMID:103625   PMID:103631   PMID:111144   PMID:111146   PMID:111241   PMID:1512540   PMID:1749770   PMID:1778474   PMID:1974568   PMID:2115001   PMID:2119497  
PMID:2431059   PMID:2563357   PMID:2898504   PMID:2987114   PMID:2995250   PMID:3138071   PMID:3138116   PMID:3926938   PMID:3927151   PMID:3932578   PMID:3937724   PMID:4638343  
PMID:5073237   PMID:6170937   PMID:6206194   PMID:6222379   PMID:6249337   PMID:6262318   PMID:6277505   PMID:6290320   PMID:6291785   PMID:6296832   PMID:6403866   PMID:6409419  
PMID:6415486   PMID:6775818   PMID:6785724   PMID:6791832   PMID:7664778   PMID:7704573   PMID:7733512   PMID:8027997   PMID:8066444   PMID:8075633   PMID:8080841   PMID:8235658  
PMID:8390965   PMID:8429833   PMID:8436414   PMID:8436417   PMID:8458339   PMID:8511672   PMID:8558010   PMID:8563168   PMID:8566019   PMID:8618913   PMID:8661711   PMID:8751373  
PMID:8751726   PMID:8766569   PMID:8768802   PMID:8808678   PMID:8964510   PMID:9020839   PMID:9032278   PMID:9075923   PMID:9316642   PMID:9413990   PMID:9545251   PMID:9603450  
PMID:9670948   PMID:9687526   PMID:9712877   PMID:10330440   PMID:10514009   PMID:10586043   PMID:10648924   PMID:10700473   PMID:11222858   PMID:11489994   PMID:12427018   PMID:12477932  
PMID:12515535   PMID:12538695   PMID:12721618   PMID:12740607   PMID:12796466   PMID:12948492   PMID:14975236   PMID:15608191   PMID:16511898   PMID:16785310   PMID:17546032   PMID:18086860  
PMID:18354197   PMID:18584871   PMID:19001071   PMID:19116268   PMID:19561045   PMID:21441452   PMID:21873635   PMID:22043016   PMID:22927551   PMID:23267014   PMID:23296705   PMID:23319731  
PMID:23940276   PMID:24383080   PMID:24457600   PMID:24888588   PMID:25559567   PMID:25646266   PMID:25798939   PMID:26173808   PMID:26915335   PMID:27923880   PMID:28378742   PMID:28438896  
PMID:28886586   PMID:29459677  


Genomics

Comparative Map Data
Igkc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39670,703,419 - 70,703,738 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl670,703,419 - 70,703,950 (+)EnsemblGRCm39 Ensembl
GRCm38670,726,435 - 70,726,754 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl670,726,435 - 70,726,966 (+)EnsemblGRCm38mm10GRCm38
MGSCv37670,676,429 - 70,676,748 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera672,811,869 - 72,812,188 (+)NCBICelera
Cytogenetic Map6C1NCBI
cM Map632.04NCBI
IGKC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38288,857,361 - 88,857,683 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl288,857,161 - 88,857,683 (-)EnsemblGRCh38hg38GRCh38
GRCh37289,156,874 - 89,157,196 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36288,937,989 - 88,938,311 (-)NCBINCBI36Build 36hg18NCBI36
Celera287,632,104 - 87,632,426 (+)NCBICelera
Cytogenetic Map2p11.2NCBI
HuRef288,075,653 - 88,166,302 (-)NCBIHuRef
CHM1_1289,086,475 - 89,086,797 (-)NCBICHM1_1
T2T-CHM13v2.0288,866,370 - 88,866,692 (-)NCBIT2T-CHM13v2.0
Igkc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
RGSC_v3.44102,208,006 - 102,208,502 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera417,127,845 - 17,128,341 (+)NCBICelera
Cytogenetic Map4q31NCBI

Variants

.
Variants in Igkc
17 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:174
Count of miRNA genes:158
Interacting mature miRNAs:162
Transcripts:ENSMUST00000103410
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396633110Mouse
1301266Lmr4_mleishmaniasis resistance 4 (mouse)Not determined64209335876093500Mouse
12910785Pwgrq16_mpost-weaning growth rate QTL 16 (mouse)64380374777788506Mouse
4140983Srilp_msleep response to influenza, light phase (mouse)Not determined4870349075424693Mouse
12910798Pwgrq5_mpre-weaning growth rate QTL 5 (mouse)64380374777788506Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46912919136400690Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648696934125336963Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396633110Mouse
14746995Manh60_mmandible shape 60 (mouse)63720266271202662Mouse
12910807Pwbwq11_mpost-weaning body weight QTL 11 (mouse)64380374777788506Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648696934148351498Mouse
1301254Skts11_mskin tumor susceptibility 11 (mouse)Not determined65115613485156284Mouse
1357442Dbts1_mdiabetes 1 (mouse)Not determined61823414773364675Mouse
12910802Pwbwq12_mpost-weaning body weight QTL 12 (mouse)64380374777788506Mouse
4141094Hrtr1_mheart rate 1 (mouse)Not determined3674146370741463Mouse
1300618Pgia19_mproteoglycan induced arthritis 19 (mouse)Not determined64529099387403016Mouse
12910809Pwbwq10_mpost-weaning body weight QTL 10 (mouse)64380374777788506Mouse
12910820Ogrq3_moverall growth rate QTL 3 (mouse)64380374777788506Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396633110Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670402880104403016Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396633110Mouse
10412213Sxbq2_mSGC/Knj cross B6 QTL 2 (mouse)Not determined61991268571299759Mouse
1300650Bw18_mbody weight QTL 18 (mouse)Not determined666690851100691013Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670402880104403016Mouse
13208564Bmiq7_mbody mass index QTL 7 (mouse)62499999979976983Mouse
26884441Sklq3_mskull length QTL 3, 5 week (mouse)6760000080576983Mouse
10412119Stv_mstriatal volumne (mouse)Not determined660026991100026967Mouse
1558977Skmw10_mskeletal muscle weight 10 (mouse)Not determined65842456692424693Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648703490125333748Mouse
4141028Mclr_mmethylcholanthrene lymphoma resistance (mouse)Not determined5435041188356155Mouse
1301326Trbv4c2_mT cell receptor beta variable 4 (mouse)Not determined64086823071356155Mouse
10043972Obq28_mobesity QTL 28 (mouse)Not determined65851741692517416Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487403016Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63864656092584431Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645290993128811995Mouse
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652138693116132228Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670402880104403016Mouse
15039373Adip28_madiposity 28 (mouse)65628519490285194Mouse
4141782Mrdq5_mmodifier of retinal degeneration QTL 5 (mouse)Not determined3282758578215957Mouse
15039375Bw41_mbody weight QTL 41 (mouse)65628519490285194Mouse
1301369Im4_mimmunoregulatory 4 (mouse)Not determined66346172197461888Mouse
12880424V25Dq4_mvitamin D inactive form serum level QTL 4 (mouse)64157698575576985Mouse
11040600Lmr4c_mleishmaniasis resistance 4c (mouse)64209335876093500Mouse
11040601Lmr4a_mleishmaniasis resistance 4a (mouse)64209335876093500Mouse
11533915Mts4_mmammary tumor susceptibility 4 (mouse)64209335876093500Mouse
10043885Cia6c_mcollagen induced arthritis QTL 6c (mouse)Not determined64444280571096451Mouse
1301740Bwq2_mbody weight QTL 2 (mouse)Not determined66003466394034782Mouse


Expression


Sequence


Ensembl Acc Id: ENSMUST00000103410   ⟹   ENSMUSP00000100206
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl670,703,419 - 70,703,950 (+)Ensembl
GRCm38.p6 Ensembl670,726,435 - 70,726,966 (+)Ensembl
Protein Sequences
GenBank Protein AAC52821 (Get FASTA)   NCBI Sequence Viewer  
  CAA24189 (Get FASTA)   NCBI Sequence Viewer  
  CAA80051 (Get FASTA)   NCBI Sequence Viewer  
  CAA81787 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000100206.2
GenBank Protein P01837 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSMUSP00000100206   ⟸   ENSMUST00000103410
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P01837-F1-model_v2 AlphaFold P01837 1-107 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:96495 AgrOrtholog
Ensembl Genes ENSMUSG00000076609 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000103410.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_C1-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  IgV_Light_Chain UniProtKB/TrEMBL
  MHC/Immunoglobulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:96495 ENTREZGENE
NCBI Gene Igkc ENTREZGENE
PANTHER IG KAPPA CHAIN V-II REGION 26-10-RELATED UniProtKB/TrEMBL
  IG-LIKE DOMAIN-CONTAINING PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IMMUNOGLOBULIN LIGHT CHAIN UniProtKB/TrEMBL
  MHC CLASS II-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam C1-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  V-set UniProtKB/TrEMBL
PhenoGen Igkc PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_MHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IGc1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A4U9FD83_MOUSE UniProtKB/TrEMBL
  A0A5H1ZRK8_MOUSE UniProtKB/TrEMBL
  A2NHM3_MOUSE UniProtKB/TrEMBL
  A2P1G9_MOUSE UniProtKB/TrEMBL
  IGKC_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A0A075B5P2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-12 Igkc  immunoglobulin kappa constant  Igk-C  immunoglobulin kappa chain, constant region  Symbol and/or name change 5135510 APPROVED