Klrc1 (killer cell lectin like receptor C1) - Rat Genome Database

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Gene: Klrc1 (killer cell lectin like receptor C1) Rattus norvegicus
Analyze
Symbol: Klrc1
Name: killer cell lectin like receptor C1
RGD ID: 2976
Description: Predicted to enable HLA-E specific inhibitory MHC class Ib receptor activity and MHC class I protein complex binding activity. Predicted to be involved in CD8-positive, gamma-delta intraepithelial T cell differentiation; immune response-regulating cell surface receptor signaling pathway; and regulation of leukocyte mediated cytotoxicity. Predicted to be located in external side of plasma membrane. Predicted to be part of receptor complex. Orthologous to several human genes including KLRC1 (killer cell lectin like receptor C1); PARTICIPATES IN antigen processing and presentation pathway; graft-versus-host disease pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: killer cell lectin-like receptor subfamily C, member 1; natural killer cell protein group 2-A (NKG2A); rNKG2A
RGD Orthologs
Human
Mouse
Bonobo
Pig
Green Monkey
Alliance Genes
More Info more info ...
Candidate Gene For: Oia7
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24163,142,142 - 163,152,425 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4163,147,189 - 163,152,425 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4169,376,954 - 169,387,239 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.04165,159,913 - 165,170,202 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.04163,793,961 - 163,804,246 (-)NCBIRnor_WKY
Rnor_6.04163,453,435 - 163,463,718 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4163,458,528 - 163,463,718 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04212,069,326 - 212,089,511 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44166,976,056 - 166,986,568 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14167,220,992 - 167,231,491 (-)NCBI
Celera4151,820,076 - 151,830,359 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Two genes in the rat homologous to human NKG2. Berg SF, etal., Eur J Immunol 1998 Feb;28(2):444-50
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Phenotypic and functional changes of cytotoxic CD56pos natural T cells determine outcome of acute hepatitis C virus infection. Golden-Mason L, etal., J Virol. 2007 Sep;81(17):9292-8. doi: 10.1128/JVI.00834-07. Epub 2007 Jun 6.
4. Association of NKG2A with treatment for chronic hepatitis C virus infection. Harrison RJ, etal., Clin Exp Immunol. 2010 Aug;161(2):306-14. doi: 10.1111/j.1365-2249.2010.04169.x. Epub 2010 Jun 9.
5. Direct antiviral agents upregulate natural killer cell potential activity in chronic hepatitis C patients. Jiang HJ, etal., Clin Exp Med. 2019 Aug;19(3):299-308. doi: 10.1007/s10238-019-00564-9. Epub 2019 Jun 20.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. GOA pipeline RGD automated data pipeline
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:14707119   PMID:18448674   PMID:23610400  


Genomics

Comparative Map Data
Klrc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24163,142,142 - 163,152,425 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4163,147,189 - 163,152,425 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4169,376,954 - 169,387,239 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.04165,159,913 - 165,170,202 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.04163,793,961 - 163,804,246 (-)NCBIRnor_WKY
Rnor_6.04163,453,435 - 163,463,718 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4163,458,528 - 163,463,718 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04212,069,326 - 212,089,511 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44166,976,056 - 166,986,568 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14167,220,992 - 167,231,491 (-)NCBI
Celera4151,820,076 - 151,830,359 (-)NCBICelera
Cytogenetic Map4q42NCBI
KLRC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381210,442,264 - 10,454,685 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1210,442,264 - 10,454,685 (-)EnsemblGRCh38hg38GRCh38
GRCh371210,594,863 - 10,607,284 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361210,489,894 - 10,498,251 (-)NCBINCBI36Build 36hg18NCBI36
Build 341210,489,900 - 10,498,251NCBI
Celera1215,745,049 - 15,753,642 (-)NCBICelera
Cytogenetic Map12p13.2NCBI
HuRef1210,325,626 - 10,334,218 (-)NCBIHuRef
CHM1_11210,568,114 - 10,576,714 (-)NCBICHM1_1
T2T-CHM13v2.01210,313,642 - 10,326,059 (-)NCBIT2T-CHM13v2.0
Klrc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396129,642,978 - 129,659,815 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6129,642,978 - 129,655,936 (-)EnsemblGRCm39 Ensembl
GRCm386129,666,015 - 129,682,852 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6129,666,015 - 129,678,973 (-)EnsemblGRCm38mm10GRCm38
MGSCv376129,624,877 - 129,628,928 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366129,640,552 - 129,644,603 (-)NCBIMGSCv36mm8
Celera6131,386,448 - 131,390,507 (-)NCBICelera
Cytogenetic Map6F3NCBI
LOC100990924
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11210,736,949 - 10,745,055 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1210,720,723 - 10,744,046 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01210,469,351 - 10,576,060 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LOC100523789
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1561,621,869 - 61,633,693 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2564,345,215 - 64,351,760 (+)NCBISscrofa10.2Sscrofa10.2susScr3
KLRC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11110,286,280 - 10,294,853 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1110,286,787 - 10,293,585 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660892,363,181 - 2,372,502 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Klrc1
198 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:16
Interacting mature miRNAs:16
Transcripts:ENSRNOT00000012586, ENSRNOT00000044301
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 1
Low 1 8 15 3 18 3 2 2 3 6 10 2
Below cutoff 2 7 22 19 19 4 5 2 18 8 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000085671   ⟹   ENSRNOP00000069271
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4163,147,189 - 163,152,425 (-)Ensembl
Rnor_6.0 Ensembl4163,458,528 - 163,463,718 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095483   ⟹   ENSRNOP00000092902
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4163,147,189 - 163,152,425 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110807   ⟹   ENSRNOP00000084589
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4163,147,189 - 163,152,425 (-)Ensembl
RefSeq Acc Id: NM_001037441   ⟹   NP_001032518
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24163,142,142 - 163,152,425 (-)NCBI
Rnor_6.04163,453,435 - 163,463,718 (-)NCBI
Rnor_5.04212,069,326 - 212,089,511 (-)NCBI
RGSC_v3.44166,976,056 - 166,986,568 (-)RGD
Celera4151,820,076 - 151,830,359 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001032518 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC40050 (Get FASTA)   NCBI Sequence Viewer  
  EDM01713 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001032518   ⟸   NM_001037441
- Sequence:
RefSeq Acc Id: ENSRNOP00000069271   ⟸   ENSRNOT00000085671
RefSeq Acc Id: ENSRNOP00000084589   ⟸   ENSRNOT00000110807
RefSeq Acc Id: ENSRNOP00000092902   ⟸   ENSRNOT00000095483
Protein Domains
C-type lectin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JUX8-F1-model_v2 AlphaFold A0A0G2JUX8 1-234 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2976 AgrOrtholog
BioCyc Gene G2FUF-42767 BioCyc
Ensembl Genes ENSRNOG00000055196 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000069271 ENTREZGENE
  ENSRNOP00000069271.2 UniProtKB/TrEMBL
  ENSRNOP00000084589.1 UniProtKB/TrEMBL
  ENSRNOP00000092902.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000085671 ENTREZGENE
  ENSRNOT00000085671.2 UniProtKB/TrEMBL
  ENSRNOT00000095483.1 UniProtKB/TrEMBL
  ENSRNOT00000110807.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
InterPro C-type_lectin UniProtKB/TrEMBL
  C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin_fold UniProtKB/TrEMBL
  NKR-like_CTLD UniProtKB/TrEMBL
NCBI Gene 29683 ENTREZGENE
Pfam Lectin_C UniProtKB/TrEMBL
PhenoGen Klrc1 PhenoGen
PROSITE C_TYPE_LECTIN_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP C-type_lectin_fold UniProtKB/TrEMBL
UniProt A0A0G2JUX8_RAT UniProtKB/TrEMBL
  A0A8I5ZZY2_RAT UniProtKB/TrEMBL
  A0A8I6AGH4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-20 Klrc1  killer cell lectin like receptor C1  Klrc1  killer cell lectin-like receptor subfamily C, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Klrc1  killer cell lectin-like receptor subfamily C, member 1       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains a C-terminal domain homologous to the carbohydrate recognition domain (CRD) of C-type lectins 61084
gene_domains contains a cytoplasmic immunoreceptor tyrosine based inhibition motif (ITIM) 61084
gene_evolution contains a C-terminal domain homologous to the carbohydrate recognition domain (CRD) of C-type lectins  
gene_expression expressed in the natural killer (NK) cells 61084
gene_mapping maps to the rat NK gene complex 61084
gene_product member of the NKG2 multigene family 61084