Grik2 (glutamate ionotropic receptor kainate type subunit 2) - Rat Genome Database
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Gene: Grik2 (glutamate ionotropic receptor kainate type subunit 2) Rattus norvegicus
Analyze
Symbol: Grik2
Name: glutamate ionotropic receptor kainate type subunit 2
RGD ID: 2733
Description: Exhibits several functions, including PDZ domain binding activity; enzyme binding activity; and kainate selective glutamate receptor activity. Involved in several processes, including negative regulation of glutamatergic synaptic transmission; positive regulation of neuron apoptotic process; and regulation of JNK cascade. Localizes to several cellular components, including dendrite cytoplasm; ionotropic glutamate receptor complex; and perikaryon. Human ortholog(s) of this gene implicated in Huntington's disease and autosomal recessive non-syndromic intellectual disability. Orthologous to human GRIK2 (glutamate ionotropic receptor kainate type subunit 2); PARTICIPATES IN glutamate signaling pathway; INTERACTS WITH (+)-pilocarpine; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: GluK2; gluR-6; GluR6; glutamate receptor 6; glutamate receptor ionotropic, kainate 2; glutamate receptor, ionotropic kainate 2; glutamate receptor, ionotropic, kainate 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22052,135,325 - 52,833,061 (-)NCBI
Rnor_6.0 Ensembl2053,789,760 - 54,517,709 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02053,791,428 - 54,517,691 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02055,397,877 - 56,122,315 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42053,231,473 - 53,713,131 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12053,258,695 - 53,741,826 (-)NCBI
Celera2047,307,163 - 47,987,148 (+)NCBICelera
Cytogenetic Map20q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Chaudhry C, etal., Proc Natl Acad Sci U S A. 2009 Jul 28;106(30):12329-34. doi: 10.1073/pnas.0904175106. Epub 2009 Jul 15.
2. Das U, etal., Proc Natl Acad Sci U S A. 2010 May 4;107(18):8463-8. doi: 10.1073/pnas.1000838107. Epub 2010 Apr 19.
3. Egebjerg J, etal., Nature 1991 Jun 27;351(6329):745-8.
4. Garcia EP, etal., Neuron. 1998 Oct;21(4):727-39.
5. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. GOA data from the GO Consortium
7. Guo W, etal., Eur J Pharmacol 2002 Oct 11;452(3):309-18.
8. Jiang HX, etal., J Neurosci Res. 2007 Oct;85(13):2960-70.
9. Jin XT, etal., Eur J Neurosci. 2006 Jan;23(2):374-86.
10. Konopacki FA, etal., Proc Natl Acad Sci U S A. 2011 Dec 6;108(49):19772-7. doi: 10.1073/pnas.1111575108. Epub 2011 Nov 16.
11. Kumar J, etal., Nat Struct Mol Biol. 2009 Jun;16(6):631-8. doi: 10.1038/nsmb.1613. Epub 2009 May 24.
12. Lu CR, etal., J Comp Neurol. 2005 May 30;486(2):169-78.
13. Lucifora S, etal., Pain. 2006 Jan;120(1-2):97-105. Epub 2005 Dec 15.
14. MacDonald ME, etal., Neurology 1999 Oct 12;53(6):1330-2.
15. Martin S, etal., Nature. 2007 May 17;447(7142):321-5. Epub 2007 May 7.
16. Meyerson JR, etal., Nature. 2014 Oct 16;514(7522):328-34. doi: 10.1038/nature13603. Epub 2014 Aug 3.
17. MGD data from the GO Consortium
18. NCBI rat LocusLink and RefSeq merged data July 26, 2002
19. OMIM Disease Annotation Pipeline
20. Online Mendelian Inheritance in Man, OMIM (TM).
21. Paternain AV, etal., J Neurosci. 2000 Jan 1;20(1):196-205.
22. Pipeline to import KEGG annotations from KEGG into RGD
23. RGD automated data pipeline
24. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
25. RGD automated import pipeline for gene-chemical interactions
26. Salinas GD, etal., J Biol Chem. 2006 Dec 29;281(52):40164-73. Epub 2006 Oct 24.
27. Savinainen A, etal., J Biol Chem. 2001 Apr 6;276(14):11382-6. Epub 2001 Jan 10.
28. Sussman HM, etal., J Speech Hear Res. 1975 Mar;18(1):74-81.
29. Weston MC, etal., Nat Struct Mol Biol. 2006 Dec;13(12):1120-7. Epub 2006 Nov 19.
30. Zhu QJ, etal., FEBS Lett. 2012 May 7;586(9):1259-64. doi: 10.1016/j.febslet.2012.03.048. Epub 2012 Mar 31.
Additional References at PubMed
PMID:1310861   PMID:1322826   PMID:7681676   PMID:9141074   PMID:9490692   PMID:9580260   PMID:9880586   PMID:10479699   PMID:10704492   PMID:11069933   PMID:11144357   PMID:11182092  
PMID:11744724   PMID:11985817   PMID:12151522   PMID:12223554   PMID:12947409   PMID:12954862   PMID:14724198   PMID:15014126   PMID:15458844   PMID:15483117   PMID:15509753   PMID:15513934  
PMID:15537878   PMID:15539395   PMID:15632090   PMID:15673679   PMID:15677325   PMID:15796762   PMID:15928066   PMID:16219388   PMID:16267825   PMID:16354929   PMID:16439423   PMID:17005866  
PMID:17174564   PMID:17428973   PMID:17620617   PMID:18172894   PMID:18307989   PMID:18562501   PMID:18680160   PMID:19180187   PMID:19449206   PMID:19561126   PMID:19784088   PMID:20848775  
PMID:21148565   PMID:21557511   PMID:21734292   PMID:22114280   PMID:22345355   PMID:22445759   PMID:22509486   PMID:22522402   PMID:22813734   PMID:23400781   PMID:23530186   PMID:23720540  
PMID:23861400   PMID:23949220   PMID:23955023   PMID:23975096   PMID:24895134   PMID:25201974   PMID:25316086   PMID:26282342   PMID:27580033   PMID:28100490   PMID:28180184   PMID:28636947  
PMID:29193067   PMID:30421168   PMID:30559217   PMID:31628192  


Genomics

Comparative Map Data
Grik2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22052,135,325 - 52,833,061 (-)NCBI
Rnor_6.0 Ensembl2053,789,760 - 54,517,709 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02053,791,428 - 54,517,691 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02055,397,877 - 56,122,315 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42053,231,473 - 53,713,131 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12053,258,695 - 53,741,826 (-)NCBI
Celera2047,307,163 - 47,987,148 (+)NCBICelera
Cytogenetic Map20q13NCBI
GRIK2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6101,181,257 - 102,070,083 (+)EnsemblGRCh38hg38GRCh38
GRCh386101,393,708 - 102,070,083 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh376101,841,584 - 102,517,958 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366101,953,675 - 102,623,474 (+)NCBINCBI36hg18NCBI36
Build 346101,953,674 - 102,623,474NCBI
Celera6102,490,982 - 103,163,448 (+)NCBI
Cytogenetic Map6q16.3NCBI
HuRef699,289,230 - 99,962,155 (+)NCBIHuRef
CHM1_16102,108,429 - 102,780,216 (+)NCBICHM1_1
Grik2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391048,969,776 - 49,666,523 (-)NCBIGRCm39mm39
GRCm39 Ensembl1048,970,929 - 49,664,862 (-)Ensembl
GRCm381049,093,680 - 49,790,161 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1049,094,833 - 49,788,766 (-)EnsemblGRCm38mm10GRCm38
MGSCv371048,819,269 - 49,508,560 (-)NCBIGRCm37mm9NCBIm37
MGSCv361048,789,404 - 49,471,824 (-)NCBImm8
Celera1049,961,395 - 50,650,295 (-)NCBICelera
Cytogenetic Map10B3NCBI
cM Map1024.87NCBI
Grik2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541127,103,470 - 27,801,177 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541127,096,214 - 27,759,503 (+)NCBIChiLan1.0ChiLan1.0
GRIK2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16103,106,776 - 103,784,640 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6103,334,707 - 103,783,092 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0698,720,430 - 99,903,582 (+)NCBIMhudiblu_PPA_v0panPan3
GRIK2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1259,355,017 - 59,990,408 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11258,932,754 - 59,991,305 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Grik2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366512,756,559 - 3,401,806 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GRIK2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl168,057,737 - 68,679,278 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1168,052,086 - 68,680,448 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2177,317,681 - 77,555,955 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GRIK2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11371,855,960 - 72,545,376 (-)NCBI
ChlSab1.1 Ensembl1371,855,794 - 72,325,857 (-)Ensembl
Grik2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248102,731,573 - 3,407,186 (-)NCBI

Position Markers
D20Got44  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02054,294,088 - 54,294,337NCBIRnor6.0
Rnor_5.02055,896,923 - 55,897,172UniSTSRnor5.0
RGSC_v3.42053,738,803 - 53,739,053RGDRGSC3.4
RGSC_v3.42053,738,804 - 53,739,053UniSTSRGSC3.4
RGSC_v3.12053,767,501 - 53,767,750RGD
Celera2047,501,945 - 47,502,194UniSTS
RH 3.4 Map20562.35UniSTS
RH 3.4 Map20562.35RGD
Cytogenetic Map20q13UniSTS
BF394244  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02054,457,376 - 54,457,585NCBIRnor6.0
Rnor_5.02056,059,981 - 56,060,190UniSTSRnor5.0
RGSC_v3.42053,886,466 - 53,886,675UniSTSRGSC3.4
Celera2047,368,495 - 47,368,704UniSTS
Cytogenetic Map20q13UniSTS
AU046653  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02054,515,269 - 54,515,404NCBIRnor6.0
Rnor_5.02056,119,893 - 56,120,028UniSTSRnor5.0
RGSC_v3.42052,447,060 - 52,447,195UniSTSRGSC3.4
Celera2047,309,450 - 47,309,585UniSTS
Cytogenetic Map20q13UniSTS
RH134654  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02053,790,095 - 53,790,277NCBIRnor6.0
Rnor_5.02055,396,544 - 55,396,726UniSTSRnor5.0
RGSC_v3.42053,230,140 - 53,230,322UniSTSRGSC3.4
Celera2047,988,299 - 47,988,481UniSTS
RH 3.4 Map20557.94UniSTS
Cytogenetic Map20q13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201383430956205956Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201383430956205956Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201782709656205956Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202085847056205956Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202660884356205956Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202660884356205956Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202660884356205956Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202671232356205956Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)203091348156205956Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:61
Count of miRNA genes:58
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000037559
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


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 68 5 4
Low 10 16 12 6 6 6 30 30 8 6
Below cutoff 3 33 18 18 7 18 2 4 7 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000037559   ⟹   ENSRNOP00000033070
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2053,789,760 - 54,269,525 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076234   ⟹   ENSRNOP00000068172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2053,789,954 - 54,517,709 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076805
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2053,789,954 - 54,517,709 (-)Ensembl
RefSeq Acc Id: NM_019309   ⟹   NP_062182
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22052,135,325 - 52,833,061 (-)NCBI
Rnor_6.02053,791,428 - 54,517,691 (-)NCBI
Rnor_5.02055,397,877 - 56,122,315 (-)NCBI
RGSC_v3.42053,231,473 - 53,713,131 (-)RGD
Celera2047,307,163 - 47,987,148 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_062182 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA77647 (Get FASTA)   NCBI Sequence Viewer  
  CAA77778 (Get FASTA)   NCBI Sequence Viewer  
  EDL99658 (Get FASTA)   NCBI Sequence Viewer  
  EDL99659 (Get FASTA)   NCBI Sequence Viewer  
  P42260 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_062182   ⟸   NM_019309
- Peptide Label: precursor
- UniProtKB: P42260 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000033070   ⟸   ENSRNOT00000037559
RefSeq Acc Id: ENSRNOP00000068172   ⟸   ENSRNOT00000076234
Protein Domains
Lig_chan-Glu_bd   PBPe

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2733 AgrOrtholog
Ensembl Genes ENSRNOG00000000368 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000033070 UniProtKB/TrEMBL
  ENSRNOP00000068172 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000037559 UniProtKB/TrEMBL
  ENSRNOT00000076234 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro ANF_lig-bd_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glu/Gly-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Iono_rcpt_met UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Iontro_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peripla_BP_I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:54257 UniProtKB/Swiss-Prot
NCBI Gene 54257 ENTREZGENE
Pfam ANF_receptor UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lig_chan UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lig_chan-Glu_bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Grik2 PhenoGen
PRINTS NMDARECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Lig_chan-Glu_bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PBPe UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53822 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1M855_RAT UniProtKB/TrEMBL
  GRIK2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Grik2  glutamate ionotropic receptor kainate type subunit 2  Grik2  glutamate receptor, ionotropic, kainate 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Grik2  glutamate receptor, ionotropic, kainate 2      Name updated 70584 APPROVED