Grik5 (glutamate ionotropic receptor kainate type subunit 5) - Rat Genome Database

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Gene: Grik5 (glutamate ionotropic receptor kainate type subunit 5) Rattus norvegicus
Analyze
Symbol: Grik5
Name: glutamate ionotropic receptor kainate type subunit 5
RGD ID: 2735
Description: Enables identical protein binding activity; kainate selective glutamate receptor activity; and protein domain specific binding activity. Involved in several processes, including cellular response to glucose stimulus; positive regulation of neuron apoptotic process; and protein retention in ER lumen. Located in several cellular components, including perikaryon; postsynaptic density; and terminal bouton. Part of ionotropic glutamate receptor complex. Is active in glutamatergic synapse. Is integral component of postsynaptic membrane and integral component of presynaptic membrane. Used to study visual epilepsy. Biomarker of temporal lobe epilepsy. Orthologous to human GRIK5 (glutamate ionotropic receptor kainate type subunit 5); PARTICIPATES IN glutamate signaling pathway; INTERACTS WITH (+)-pilocarpine; 1-naphthyl isothiocyanate; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: GluK5; glutamate receptor ionotropic, kainate 5; glutamate receptor KA-2; glutamate receptor KA2; glutamate receptor, ionotropic kainate 5; glutamate receptor, ionotropic, kainate 5; iGlu5; KA2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2180,605,878 - 80,667,896 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl180,605,892 - 80,667,125 (-)Ensembl
Rnor_6.0181,885,516 - 81,946,731 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,885,521 - 81,946,714 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0183,137,805 - 83,207,039 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4180,313,801 - 80,384,390 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1180,391,911 - 80,462,398 (-)NCBI
Celera175,051,832 - 75,112,171 (-)NCBICelera
Cytogenetic Map1q21NCBI
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

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Cloning of a putative glutamate receptor: a low affinity kainate-binding subunit. Bettler B, etal., Neuron 1992 Feb;8(2):257-65.
2. Ultrastructural localisation and differential agonist-induced regulation of AMPA and kainate receptors present at the presynaptic active zone and postsynaptic density. Feligioni M, etal., J Neurochem. 2006 Oct;99(2):549-60. Epub 2006 Aug 11.
3. SAP90 binds and clusters kainate receptors causing incomplete desensitization. Garcia EP, etal., Neuron. 1998 Oct;21(4):727-39.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Functional cooperation between KA2 and GluR6 subunits is involved in the ischemic brain injury. Jiang HX, etal., J Neurosci Res. 2007 Oct;85(13):2960-70.
7. Ionotropic glutamate receptor expression in preganglionic neurons of the rat inferior salivatory nucleus. Kim M, etal., Auton Neurosci. 2008 Feb 29;138(1-2):83-90. Epub 2007 Dec 21.
8. High-affinity kainate and domoate receptors in rat brain. Lomeli H, etal., FEBS Lett 1992 Jul 28;307(2):139-43.
9. Ionotropic glutamate receptors are expressed in GABAergic terminals in the rat superficial dorsal horn. Lu CR, etal., J Comp Neurol. 2005 May 30;486(2):169-78.
10. Presynaptic low- and high-affinity kainate receptors in nociceptive spinal afferents. Lucifora S, etal., Pain. 2006 Jan;120(1-2):97-105. Epub 2005 Dec 15.
11. Altered hippocampal kainate-receptor mRNA levels in temporal lobe epilepsy patients. Mathern GW, etal., Neurobiol Dis. 1998 Sep;5(3):151-76.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. GluR5 and GluR6 kainate receptor subunits coexist in hippocampal neurons and coassemble to form functional receptors. Paternain AV, etal., J Neurosci. 2000 Jan 1;20(1):196-205.
15. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
16. Multiple trafficking signals regulate kainate receptor KA2 subunit surface expression. Ren Z, etal., J Neurosci. 2003 Jul 23;23(16):6608-16.
17. GOA pipeline RGD automated data pipeline
18. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. Allelic association of juvenile absence epilepsy with a GluR5 kainate receptor gene (GRIK1) polymorphism. Sander T, etal., Am J Med Genet 1997 Jul 25;74(4):416-21.
21. Elevated glucose changes the expression of ionotropic glutamate receptor subunits and impairs calcium homeostasis in retinal neural cells. Santiago AR, etal., Invest Ophthalmol Vis Sci. 2006 Sep;47(9):4130-7.
22. Rat GluR7 and a carboxy-terminal splice variant, GluR7b, are functional kainate receptor subunits with a low sensitivity to glutamate. Schiffer HH, etal., Neuron 1997 Nov;19(5):1141-6.
23. Antagonists of GLU(K5)-containing kainate receptors prevent pilocarpine-induced limbic seizures. Smolders I, etal., Nat Neurosci 2002 Aug;5(8):796-804.
24. Pursuit auditory tracking of dichotically presented tonal amplitudes. Sussman HM, etal., J Speech Hear Res. 1975 Mar;18(1):74-81.
25. Kainate-induced seizures alter protein composition and N-methyl-D-aspartate receptor function of rat forebrain postsynaptic densities. Wyneken U, etal., Neuroscience. 2001;102(1):65-74.
Additional References at PubMed
PMID:1310861   PMID:1321949   PMID:1373632   PMID:12477932   PMID:12533602   PMID:12954862   PMID:15796762   PMID:16814779   PMID:17110338   PMID:17174564   PMID:22114280   PMID:22345355  
PMID:22509486   PMID:23288040   PMID:23975096   PMID:33724189  


Genomics

Comparative Map Data
Grik5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2180,605,878 - 80,667,896 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl180,605,892 - 80,667,125 (-)Ensembl
Rnor_6.0181,885,516 - 81,946,731 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,885,521 - 81,946,714 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0183,137,805 - 83,207,039 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4180,313,801 - 80,384,390 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1180,391,911 - 80,462,398 (-)NCBI
Celera175,051,832 - 75,112,171 (-)NCBICelera
Cytogenetic Map1q21NCBI
GRIK5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381941,998,324 - 42,070,206 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1941,998,321 - 42,070,206 (-)EnsemblGRCh38hg38GRCh38
GRCh371942,502,476 - 42,574,358 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361947,194,313 - 47,261,797 (-)NCBINCBI36hg18NCBI36
Build 341947,194,312 - 47,261,797NCBI
Celera1939,302,092 - 39,369,575 (-)NCBI
Cytogenetic Map19q13.2NCBI
HuRef1938,934,282 - 39,001,175 (-)NCBIHuRef
CHM1_11942,504,085 - 42,571,606 (-)NCBICHM1_1
T2T-CHM13v2.01944,817,686 - 44,889,570 (-)NCBI
Grik5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39724,709,274 - 24,775,421 (-)NCBIGRCm39mm39
GRCm39 Ensembl724,709,274 - 24,771,771 (-)Ensembl
GRCm38725,009,849 - 25,075,694 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl725,009,849 - 25,072,346 (-)EnsemblGRCm38mm10GRCm38
MGSCv37725,794,868 - 25,857,388 (-)NCBIGRCm37mm9NCBIm37
MGSCv36724,718,636 - 24,781,058 (-)NCBImm8
Celera719,625,658 - 19,688,340 (-)NCBICelera
Cytogenetic Map7A3NCBI
cM Map713.73NCBI
Grik5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955555812,928 - 864,874 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955555804,907 - 865,395 (+)NCBIChiLan1.0ChiLan1.0
GRIK5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11947,389,253 - 47,549,018 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1947,389,804 - 47,544,604 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01938,886,108 - 38,956,938 (-)NCBIMhudiblu_PPA_v0panPan3
GRIK5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11112,270,157 - 112,321,672 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1112,270,424 - 112,321,672 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1111,702,486 - 111,753,731 (+)NCBI
ROS_Cfam_1.01112,887,140 - 112,941,269 (+)NCBI
ROS_Cfam_1.0 Ensembl1112,889,737 - 112,941,269 (+)Ensembl
UMICH_Zoey_3.11112,443,154 - 112,494,596 (+)NCBI
UNSW_CanFamBas_1.01112,079,617 - 112,130,847 (+)NCBI
UU_Cfam_GSD_1.01113,005,888 - 113,057,155 (+)NCBI
Grik5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934916,062,693 - 16,121,657 (+)NCBI
SpeTri2.0NW_004936706410,806 - 469,000 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GRIK5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl649,845,656 - 49,902,080 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1649,840,671 - 49,901,656 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2645,891,687 - 45,922,679 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GRIK5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1636,199,358 - 36,273,355 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl636,199,349 - 36,269,591 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607314,441,791 - 14,521,580 (-)NCBIVero_WHO_p1.0
Grik5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624907653,895 - 710,791 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_004624907653,568 - 711,358 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D1Wox65  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0181,945,931 - 81,946,140NCBIRnor6.0
Rnor_5.0183,206,263 - 83,206,472UniSTSRnor5.0
RGSC_v3.4180,383,607 - 80,383,816UniSTSRGSC3.4
Celera175,111,416 - 75,111,597UniSTS
Cytogenetic Map1q21UniSTS
BF404569  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2180,644,005 - 80,644,105 (+)MAPPERmRatBN7.2
Rnor_6.0181,923,654 - 81,923,753NCBIRnor6.0
Rnor_5.0183,174,789 - 83,174,888UniSTSRnor5.0
RGSC_v3.4180,360,726 - 80,360,825UniSTSRGSC3.4
Celera175,089,199 - 75,089,298UniSTS
RH 3.4 Map1824.1UniSTS
Cytogenetic Map1q21UniSTS
RH139022  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2180,645,930 - 80,646,103 (+)MAPPERmRatBN7.2
Rnor_6.0181,925,579 - 81,925,751NCBIRnor6.0
Rnor_5.0183,186,701 - 83,186,873UniSTSRnor5.0
RGSC_v3.4180,363,192 - 80,363,364UniSTSRGSC3.4
Celera175,091,065 - 75,091,237UniSTS
RH 3.4 Map6791.5UniSTS
Cytogenetic Map1q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14936146582174945Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15389511782174945Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15389511782174945Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)17219768090508767Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)177876254106047988Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17843075491209302Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)180592172125592172Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:230
Count of miRNA genes:141
Interacting mature miRNAs:163
Transcripts:ENSRNOT00000027578
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 22 6 6 6 73 20 33
Low 3 20 38 24 17 24 7 10 1 15 8 11 7
Below cutoff 1 13 11 2 11 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027578   ⟹   ENSRNOP00000027578
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl180,605,892 - 80,667,072 (-)Ensembl
Rnor_6.0 Ensembl181,885,521 - 81,946,714 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107115   ⟹   ENSRNOP00000091191
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl180,605,892 - 80,667,125 (-)Ensembl
RefSeq Acc Id: NM_031508   ⟹   NP_113696
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,605,887 - 80,667,072 (-)NCBI
Rnor_6.0181,885,516 - 81,946,714 (-)NCBI
Rnor_5.0183,137,805 - 83,207,039 (-)NCBI
RGSC_v3.4180,313,801 - 80,384,390 (-)RGD
Celera175,051,832 - 75,112,171 (-)RGD
Sequence:
RefSeq Acc Id: XM_006228382   ⟹   XP_006228444
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,605,878 - 80,667,895 (-)NCBI
Rnor_6.0181,885,516 - 81,946,731 (-)NCBI
Rnor_5.0183,137,805 - 83,207,039 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008758889   ⟹   XP_008757111
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,605,878 - 80,667,896 (-)NCBI
Rnor_6.0181,885,516 - 81,946,731 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039095322   ⟹   XP_038951250
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,605,878 - 80,667,896 (-)NCBI
RefSeq Acc Id: XM_039095358   ⟹   XP_038951286
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,605,878 - 80,656,361 (-)NCBI
RefSeq Acc Id: XM_039095397   ⟹   XP_038951325
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,605,878 - 80,667,895 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_113696   ⟸   NM_031508
- Peptide Label: precursor
- UniProtKB: Q63273 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006228444   ⟸   XM_006228382
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008757111   ⟸   XM_008758889
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000027578   ⟸   ENSRNOT00000027578
RefSeq Acc Id: XP_038951250   ⟸   XM_039095322
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038951325   ⟸   XM_039095397
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038951286   ⟸   XM_039095358
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000091191   ⟸   ENSRNOT00000107115

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63273-F1-model_v2 AlphaFold Q63273 1-979 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2735 AgrOrtholog
BioCyc Gene G2FUF-60406 BioCyc
Ensembl Genes ENSRNOG00000020310 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000027578 ENTREZGENE
  ENSRNOP00000027578.4 UniProtKB/TrEMBL
  ENSRNOP00000091191 ENTREZGENE
  ENSRNOP00000091191.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027578 ENTREZGENE
  ENSRNOT00000027578.7 UniProtKB/TrEMBL
  ENSRNOT00000107115 ENTREZGENE
  ENSRNOT00000107115.1 UniProtKB/TrEMBL
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:24407 UniProtKB/Swiss-Prot
NCBI Gene 24407 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
PharmGKB GRIK5 RGD
PhenoGen Grik5 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 A0A8I6ABK8_RAT UniProtKB/TrEMBL
  A0A8L2QF05_RAT UniProtKB/TrEMBL
  GRIK5_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q62643 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Grik5  glutamate ionotropic receptor kainate type subunit 5  Grik5  glutamate receptor, ionotropic, kainate 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Grik5  Glutamate receptor, ionotropic, kainate 5      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease allelic variants of the gene are associated with susceptibility to juvenile absence epilepsy 625595
gene_drugs antagonists (LY377770 and LY382884 ) prevent and interrupt limbic seizures induced by intra-hippocampal pilocarpine perfusion 625595
gene_function receptor for kainic acid ( a powerful convulsant) 625595
gene_process plays a role in frequency facilitation and induction of long-term potentiation (LTP) in mossy fiber pathways and in excitatory drives of inhibitory CA1 interneurons 625595