Grik4 (glutamate ionotropic receptor kainate type subunit 4) - Rat Genome Database

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Gene: Grik4 (glutamate ionotropic receptor kainate type subunit 4) Rattus norvegicus
Analyze
Symbol: Grik4
Name: glutamate ionotropic receptor kainate type subunit 4
RGD ID: 2734
Description: Contributes to glutamate-gated receptor activity. Predicted to be involved in glutamatergic synaptic transmission and modulation of chemical synaptic transmission. Located in dendrite; perikaryon; and terminal bouton. Is active in glutamatergic synapse and presynaptic membrane. Orthologous to human GRIK4 (glutamate ionotropic receptor kainate type subunit 4); PARTICIPATES IN glutamate signaling pathway; INTERACTS WITH 3,3',4,4',5-pentachlorobiphenyl; 6-propyl-2-thiouracil; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: GluK4; glutamate receptor ionotropic, kainate 4; glutamate receptor KA-1; glutamate receptor, ionotropic kainate 4; glutamate receptor, ionotropic, kainate 4; KA1; kainate receceptor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Is Marker For: Strains:   SS.LEW-(D8Chm14-D8Rat16)/Ayd  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8851,802,045 - 52,228,751 (-)NCBIGRCr8
mRatBN7.2842,903,043 - 43,331,990 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl842,905,056 - 43,193,751 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx848,399,407 - 48,703,806 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0846,678,080 - 46,982,490 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0844,545,682 - 44,850,105 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0846,804,134 - 47,237,546 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl846,806,147 - 47,094,352 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0845,279,673 - 45,708,193 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4845,510,258 - 45,681,279 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1845,519,023 - 45,690,019 (-)NCBI
Celera842,498,513 - 42,796,671 (-)NCBICelera
Cytogenetic Map8q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Grik4RatCD3epsilon deficiency  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: CD3epsilon deficiencyClinVarPMID:28492532
Grik4Ratchromosome 11 partial duplication syndrome  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: Distal trisomy 11qClinVarPMID:25741868
Grik4RatDwarfism  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: Short statureClinVarPMID:32581362
Grik4Ratimmunodeficiency 17  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: Immunodeficiency 17 and CD3 gamma deficientClinVarPMID:28492532
Grik4Ratimmunodeficiency 18  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: Immunodeficiency 18ClinVarPMID:28492532
Grik4Ratimmunodeficiency 19  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: Immunodeficiency 19ClinVarPMID:28492532
Grik4Ratinflammatory bowel disease 28  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: Inflammatory bowel disease 28ClinVarPMID:28492532
Grik4Ratisolated microphthalmia 5  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: Isolated microphthalmia 5ClinVarPMID:28492532
Grik4RatRASopathy  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: RASopathyClinVarPMID:28492532
Grik4Ratschizophrenia  ISOGRIK4 (Homo sapiens)8554872ClinVar Annotator: match by term: SchizophreniaClinVarPMID:21681106 and PMID:30208311
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Object Symbol
Species
Term
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Evidence
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Reference
Notes
Source
Original Reference(s)
Grik4Rat(+)-catechin multiple interactionsISOGRIK4 (Homo sapiens)6480464[Catechin co-treated with Grape Seed Proanthocyanidins] results in increased expression of GRIK4 mRNACTDPMID:24763279
Grik4Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOGrik4 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of GRIK4 mRNACTDPMID:21570461
Grik4Rat3,3',4,4',5-pentachlorobiphenyl increases expressionEXP 64804643 more ...CTDPMID:32119087
Grik4Rat3,3',5-triiodo-L-thyronine increases expressionISOGRIK4 (Homo sapiens)6480464Triiodothyronine results in increased expression of GRIK4 mRNACTDPMID:23397585
Grik4Rat3,4-methylenedioxymethamphetamine increases expressionISOGrik4 (Mus musculus)6480464N-Methyl-3 and 4-methylenedioxyamphetamine results in increased expression of GRIK4 mRNACTDPMID:20188158
Grik4Rat3-methylcholanthrene multiple interactionsISOGRIK4 (Homo sapiens)6480464Methylcholanthrene promotes the reaction [AHR protein binds to GRIK4 promoter]CTDPMID:20348232
Grik4Rat4,4'-sulfonyldiphenol multiple interactionsISOGrik4 (Mus musculus)6480464[bisphenol S co-treated with Tretinoin] results in decreased expression of GRIK4 mRNACTDPMID:30951980
Grik4Rat4,4'-sulfonyldiphenol affects methylationISOGrik4 (Mus musculus)6480464bisphenol S affects the methylation of GRIK4 geneCTDPMID:31683443
Grik4Rat6-propyl-2-thiouracil decreases expressionEXP 6480464Propylthiouracil results in decreased expression of GRIK4 mRNACTDPMID:25825206
Grik4Rataflatoxin B1 affects methylationISOGRIK4 (Homo sapiens)6480464Aflatoxin B1 affects the methylation of GRIK4 intronCTDPMID:30157460
Grik4Rataflatoxin B1 decreases expressionISOGRIK4 (Homo sapiens)6480464Aflatoxin B1 results in decreased expression of GRIK4 mRNACTDPMID:32234424
Grik4RatAflatoxin B2 alpha affects methylationISOGRIK4 (Homo sapiens)6480464aflatoxin B2 affects the methylation of GRIK4 intronCTDPMID:30157460
Grik4Rataflatoxin M1 decreases expressionISOGRIK4 (Homo sapiens)6480464Aflatoxin M1 results in decreased expression of GRIK4 mRNACTDPMID:30928695
Grik4Ratall-trans-retinoic acid multiple interactionsISOGrik4 (Mus musculus)6480464[bisphenol S co-treated with Tretinoin] results in decreased expression of GRIK4 mRNA and [mono-(2-ethylhexyl)phthalate co-treated with Tretinoin] results in increased expression of GRIK4 mRNACTDPMID:30951980 and PMID:36189433
Grik4Ratall-trans-retinoic acid increases expressionISOGrik4 (Mus musculus)6480464Tretinoin results in increased expression of GRIK4 mRNACTDPMID:36189433
Grik4Ratarsenous acid increases expressionISOGRIK4 (Homo sapiens)6480464Arsenic Trioxide results in increased expression of GRIK4 mRNACTDPMID:20458559
Grik4Ratatrazine affects methylationEXP 6480464Atrazine affects the methylation of GRIK4 geneCTDPMID:35440735
Grik4RatAzoxymethane multiple interactionsISOGrik4 (Mus musculus)6480464[titanium dioxide co-treated with Azoxymethane co-treated with Dextran Sulfate] results in decreased expression of GRIK4 mRNACTDPMID:29950665
Grik4Ratbenzo[a]pyrene multiple interactionsISOGrik4 (Mus musculus)6480464AHR protein affects the reaction [Benzo(a)pyrene affects the expression of GRIK4 mRNA]CTDPMID:22228805
Grik4Ratbenzo[a]pyrene decreases expressionISOGRIK4 (Homo sapiens)6480464Benzo(a)pyrene results in decreased expression of GRIK4 mRNACTDPMID:32234424

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Biological Process
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Object Symbol
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Term
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Evidence
With
Reference
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Source
Original Reference(s)
Grik4Ratchemical synaptic transmission  TAS 734533 RGD 
Grik4Rationotropic glutamate receptor signaling pathway involved_inIEAGO:00152771600115GO_REF:0000108GOCGO_REF:0000108
Grik4Rationotropic glutamate receptor signaling pathway involved_inIEAGO:00049701600115GO_REF:0000108GOCGO_REF:0000108
Grik4Ratmodulation of chemical synaptic transmission involved_inIBAFB:FBgn0004620 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Grik4Ratmonoatomic ion transmembrane transport involved_inIEAUniProtKB-KW:KW-04071600115GO_REF:0000043UniProtGO_REF:0000043
Grik4Ratmonoatomic ion transport  TAS 734533 RGD 
Grik4Ratmonoatomic ion transport involved_inIEAUniProtKB-KW:KW-04061600115GO_REF:0000043UniProtGO_REF:0000043
Grik4Ratmonoatomic ion transport involved_inIEAInterPro:IPR0015081600115GO_REF:0000002InterProGO_REF:0000002
Grik4Ratregulation of postsynaptic membrane potential involved_inIEAGO:19043151600115GO_REF:0000108GOCGO_REF:0000108
Grik4Ratregulation of presynaptic membrane potential involved_inIEAGO:00995071600115GO_REF:0000108GOCGO_REF:0000108
Grik4Ratsynaptic transmission, glutamatergic involved_inIBAFB:FBgn0004620 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
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Cellular Component
1 to 20 of 38 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Grik4Rataxon  IDA 1642495 RGD 
Grik4Ratcell projection located_inIEAUniProtKB-KW:KW-09661600115GO_REF:0000043UniProtGO_REF:0000043
Grik4Ratdendrite  IDA 1642495 RGD 
Grik4Ratglutamatergic synapse is_active_inIDA 1642473PMID:16360275SynGO 
Grik4Rathippocampal mossy fiber to CA3 synapse is_active_inIEAUniProtKB:Q8BMF5 and ensembl:ENSMUSP000001105151600115GO_REF:0000107EnsemblGO_REF:0000107
Grik4Rathippocampal mossy fiber to CA3 synapse is_active_inISOGrik4 (Mus musculus)1624291 PMID:12954862RGDPMID:12954862
Grik4Rationotropic glutamate receptor complex  TAS 734533 RGD 
Grik4Ratkainate selective glutamate receptor complex part_ofIEAUniProtKB:Q8BMF5 and ensembl:ENSMUSP000001105151600115GO_REF:0000107EnsemblGO_REF:0000107
Grik4Ratkainate selective glutamate receptor complex part_ofISOGrik4 (Mus musculus)1624291PR:P39087 more ...RGDPMID:12954862
Grik4Ratkainate selective glutamate receptor complex part_ofIBAMGI:95814 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Grik4Ratmembrane located_inIEAInterPro:IPR001320 more ...1600115GO_REF:0000002InterProGO_REF:0000002
Grik4Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Grik4Ratmembrane located_inISOGrik4 (Mus musculus)1624291 PMID:12954862RGDPMID:12954862
Grik4Ratmembrane located_inIEAUniProtKB:Q8BMF5 and ensembl:ENSMUSP000001105151600115GO_REF:0000107EnsemblGO_REF:0000107
Grik4Ratperikaryon  IDA 1642495 RGD 
Grik4Ratplasma membrane located_inIEAUniProtKB-SubCell:SL-00391600115GO_REF:0000044UniProtGO_REF:0000044
Grik4Ratplasma membrane is_active_inIBAFB:FBgn0004620 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Grik4Ratplasma membrane located_inIEAARBA:ARBA000278011600115GO_REF:0000117UniProtGO_REF:0000117
Grik4Ratplasma membrane located_inIEAUniProtKB-KW:KW-10031600115GO_REF:0000043UniProtGO_REF:0000043
Grik4Ratpostsynaptic density membrane is_active_inIBAMGI:1933206 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
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Molecular Function
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Object Symbol
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Term
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Evidence
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Reference
Notes
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Original Reference(s)
Grik4Ratglutamate-gated receptor activity  TAS 734533 RGD 
Grik4Ratglutamate-gated receptor activity contributes_toIDA 728668PMID:9390526UniProt 
Grik4Ratglutamate-gated receptor activity contributes_toIDA 405650335PMID:25139762UniProt 
Grik4Ratkainate selective glutamate receptor activity  TAS 734533 RGD 
Grik4Ratkainate selective glutamate receptor activity enablesIBAMGI:95814 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Grik4Ratligand-gated monoatomic ion channel activity enablesIEAInterPro:IPR001320 and InterPro:IPR0195941600115GO_REF:0000002InterProGO_REF:0000002
Grik4Ratligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential enablesIEAUniProtKB:Q16099 and ensembl:ENSP000004356481600115GO_REF:0000107EnsemblGO_REF:0000107
Grik4Ratligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential enablesISOGRIK4 (Homo sapiens)1624291 PMID:20026616RGDPMID:20026616
Grik4Ratmonoatomic ion channel activity enablesIEAInterPro:IPR0015081600115GO_REF:0000002InterProGO_REF:0000002
Grik4Ratprotein binding enablesISOGrik4 (Mus musculus)1624291PR:P39087 more ...RGDPMID:12954862 and PMID:21734292
Grik4Ratsignaling receptor activity enablesIEAInterPro:IPR0015081600115GO_REF:0000002InterProGO_REF:0000002
Grik4Rattransmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential enablesIBAMGI:1933206 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
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Imported Annotations - KEGG (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Grik4Ratglutamate signaling pathway  IEA 6907045 KEGGrno:04724

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#
Reference Title
Reference Citation
1. Contributions of different kainate receptor subunits to the properties of recombinant homomeric and heteromeric receptors. Fisher MT and Fisher JL, Neuroscience. 2014 Oct 10;278:70-80. doi: 10.1016/j.neuroscience.2014.08.009. Epub 2014 Aug 17.
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Regulation of kainate receptor subunit mRNA by stress and corticosteroids in the rat hippocampus. Hunter RG, etal., PLoS One. 2009;4(1):e4328. Epub 2009 Jan 30.
5. 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.
6. 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.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. 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.
14. The genes encoding the glutamate receptor subunits KA1 and KA2 (GRIK4 and GRIK5) are located on separate chromosomes in human, mouse, and rat. Szpirer C, etal., Proc Natl Acad Sci U S A 1994 Dec 6;91(25):11849-53.
15. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
1 to 15 of 15 rows
PMID:1648176   PMID:12954862   PMID:20303934   PMID:21734292   PMID:27524200  



Grik4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8851,802,045 - 52,228,751 (-)NCBIGRCr8
mRatBN7.2842,903,043 - 43,331,990 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl842,905,056 - 43,193,751 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx848,399,407 - 48,703,806 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0846,678,080 - 46,982,490 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0844,545,682 - 44,850,105 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0846,804,134 - 47,237,546 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl846,806,147 - 47,094,352 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0845,279,673 - 45,708,193 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4845,510,258 - 45,681,279 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1845,519,023 - 45,690,019 (-)NCBI
Celera842,498,513 - 42,796,671 (-)NCBICelera
Cytogenetic Map8q22NCBI
GRIK4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811120,511,748 - 120,988,906 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11120,511,746 - 120,988,906 (+)EnsemblGRCh38hg38GRCh38
GRCh3711120,382,457 - 120,859,615 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611120,036,238 - 120,362,179 (+)NCBINCBI36Build 36hg18NCBI36
Build 3411120,036,237 - 120,362,179NCBI
Celera11117,690,453 - 118,016,395 (+)NCBICelera
Cytogenetic Map11q23.3NCBI
HuRef11116,471,471 - 116,686,109 (+)NCBIHuRef
HuRef11116,709,134 - 116,796,826 (+)NCBIHuRef
CHM1_111120,418,299 - 120,744,397 (+)NCBICHM1_1
T2T-CHM13v2.011120,535,497 - 121,012,594 (+)NCBIT2T-CHM13v2.0
Grik4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39942,431,708 - 42,856,296 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl942,429,431 - 42,855,789 (-)EnsemblGRCm39 Ensembl
GRCm38942,518,182 - 42,945,000 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl942,518,135 - 42,944,493 (-)EnsemblGRCm38mm10GRCm38
MGSCv37942,328,519 - 42,752,454 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36942,271,429 - 42,695,366 (-)NCBIMGSCv36mm8
Celera939,769,322 - 40,069,762 (-)NCBICelera
Cytogenetic Map9A5.1NCBI
cM Map923.8NCBI
Grik4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541221,563,595 - 21,934,427 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541221,563,879 - 21,932,292 (+)NCBIChiLan1.0ChiLan1.0
GRIK4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29121,216,115 - 121,693,585 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111122,319,363 - 122,796,369 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011115,348,836 - 115,827,873 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111119,415,857 - 119,726,563 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11119,564,412 - 119,750,000 (+)Ensemblpanpan1.1panPan2
GRIK4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1513,075,323 - 13,453,458 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl513,073,968 - 13,370,034 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha513,130,110 - 13,552,989 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0513,020,970 - 13,444,218 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl513,019,606 - 13,314,772 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1513,141,155 - 13,563,981 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0513,063,169 - 13,485,982 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0513,101,941 - 13,524,911 (-)NCBIUU_Cfam_GSD_1.0
Grik4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947102,480,625 - 102,844,802 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365425,599,785 - 5,763,616 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365425,600,517 - 5,764,042 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GRIK4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl947,639,988 - 48,097,870 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1947,639,987 - 48,095,803 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2953,199,184 - 53,306,028 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GRIK4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11112,067,251 - 112,425,025 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1112,230,644 - 112,425,014 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604313,657,400 - 14,146,869 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Grik4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248804,250,763 - 4,580,177 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248804,250,322 - 4,583,742 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Grik4
2672 total Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain Variant Page
8 46906935 46906936 C T snv ACI/N (MCW) View more Information

Predicted Target Of
Summary Value
Count of predictions:284
Count of miRNA genes:194
Interacting mature miRNAs:214
Transcripts:ENSRNOT00000048347
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.


1 to 10 of 64 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83084815461290444Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat

1 to 10 of 64 rows
D8Rat232  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8851,810,943 - 51,811,166 (+)Marker Load Pipeline
mRatBN7.2842,913,941 - 42,914,164 (+)MAPPERmRatBN7.2
Rnor_6.0846,815,033 - 46,815,255NCBIRnor6.0
Rnor_5.0845,288,572 - 45,288,794UniSTSRnor5.0
RGSC_v3.4845,519,143 - 45,519,365RGDRGSC3.4
RGSC_v3.4845,519,144 - 45,519,366UniSTSRGSC3.4
RGSC_v3.1845,527,909 - 45,528,131RGD
Celera842,507,377 - 42,507,599UniSTS
FHH x ACI Map832.56UniSTS
FHH x ACI Map832.56RGD
Cytogenetic Map8q22UniSTS
RH143968  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2842,905,281 - 42,905,394 (+)MAPPERmRatBN7.2
Rnor_6.0846,806,373 - 46,806,485NCBIRnor6.0
Rnor_5.0845,279,912 - 45,280,024UniSTSRnor5.0
RGSC_v3.4845,510,484 - 45,510,596UniSTSRGSC3.4
Celera842,498,739 - 42,498,851UniSTS
RH 3.4 Map4626.13UniSTS
Cytogenetic Map8q22UniSTS


The following Strains have been annotated to Grik4
SS.LEW-(D8Chm14-D8Rat16)/Ayd    




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 76 75 47 14 47 6 195 86 93 45 60 28



Ensembl Acc Id: ENSRNOT00000048347   ⟹   ENSRNOP00000047794
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl842,905,056 - 43,193,751 (-)Ensembl
Rnor_6.0 Ensembl846,806,147 - 47,094,352 (-)Ensembl
RefSeq Acc Id: NM_012572   ⟹   NP_036704
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,058 - 52,102,063 (-)NCBI
mRatBN7.2842,905,056 - 43,205,077 (-)NCBI
Rnor_6.0846,806,147 - 47,107,917 (-)NCBI
Rnor_5.0845,279,673 - 45,708,193 (-)NCBI
RGSC_v3.4845,510,258 - 45,681,279 (-)RGD
Celera842,498,513 - 42,796,671 (-)RGD
Sequence:
RefSeq Acc Id: XM_017595454   ⟹   XP_017450943
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,045 - 52,228,751 (-)NCBI
mRatBN7.2842,903,043 - 43,331,987 (-)NCBI
Rnor_6.0846,804,134 - 47,237,546 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595455   ⟹   XP_017450944
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,045 - 52,228,751 (-)NCBI
mRatBN7.2842,903,043 - 43,331,988 (-)NCBI
Rnor_6.0846,804,134 - 47,237,546 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039080792   ⟹   XP_038936720
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,045 - 52,086,907 (-)NCBI
mRatBN7.2842,903,043 - 43,189,931 (-)NCBI
RefSeq Acc Id: XM_039080793   ⟹   XP_038936721
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,045 - 52,228,751 (-)NCBI
mRatBN7.2842,903,043 - 43,331,990 (-)NCBI
RefSeq Acc Id: XM_039080795   ⟹   XP_038936723
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,045 - 51,879,198 (-)NCBI
mRatBN7.2842,903,043 - 42,982,205 (-)NCBI
RefSeq Acc Id: XM_063264892   ⟹   XP_063120962
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,045 - 52,228,751 (-)NCBI
RefSeq Acc Id: XM_063264893   ⟹   XP_063120963
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,802,045 - 52,228,751 (-)NCBI
RefSeq Acc Id: NP_036704   ⟸   NM_012572
- Peptide Label: precursor
- UniProtKB: Q62642 (UniProtKB/Swiss-Prot),   Q01812 (UniProtKB/Swiss-Prot),   A0A140TAG0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450944   ⟸   XM_017595455
- Peptide Label: isoform X1
- UniProtKB: Q62642 (UniProtKB/Swiss-Prot),   Q01812 (UniProtKB/Swiss-Prot),   A0A140TAG0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450943   ⟸   XM_017595454
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000047794   ⟸   ENSRNOT00000048347
RefSeq Acc Id: XP_038936721   ⟸   XM_039080793
- Peptide Label: isoform X4
- UniProtKB: Q62642 (UniProtKB/Swiss-Prot),   Q01812 (UniProtKB/Swiss-Prot)
Ionotropic glutamate receptor C-terminal   Ionotropic glutamate receptor L-glutamate and   Receptor ligand binding region

Name Modeler Protein Id AA Range Protein Structure
AF-Q01812-F1-model_v2 AlphaFold Q01812 1-956 view protein structure


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



1 to 31 of 31 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-30765 BioCyc
Ensembl Genes ENSRNOG00000030910 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000048347 ENTREZGENE
Gene3D-CATH 3.40.50.2300 UniProtKB/Swiss-Prot
  Periplasmic binding protein-like II UniProtKB/Swiss-Prot
InterPro ANF_lig-bd_rcpt UniProtKB/Swiss-Prot
  Glu/Gly-bd UniProtKB/Swiss-Prot
  Iono_rcpt_met UniProtKB/Swiss-Prot
  Ionotropic_Glu_rcpt UniProtKB/Swiss-Prot
  Iontro_rcpt UniProtKB/Swiss-Prot
  Peripla_BP_I UniProtKB/Swiss-Prot
KEGG Report rno:24406 UniProtKB/Swiss-Prot
NCBI Gene 24406 ENTREZGENE
PANTHER IONOTROPIC GLUTAMATE RECEPTOR UniProtKB/Swiss-Prot
Pfam ANF_receptor UniProtKB/Swiss-Prot
  Lig_chan UniProtKB/Swiss-Prot
  Lig_chan-Glu_bd UniProtKB/Swiss-Prot
PharmGKB GRIK4 RGD
PhenoGen Grik4 PhenoGen
PRINTS NMDARECEPTOR UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000030910 RatGTEx
SMART Lig_chan-Glu_bd UniProtKB/Swiss-Prot
  PBPe UniProtKB/Swiss-Prot
Superfamily-SCOP Periplasmic binding protein-like II UniProtKB/Swiss-Prot
  SSF53822 UniProtKB/Swiss-Prot
TIGR TC223479
UniProt A0A140TAG0 ENTREZGENE, UniProtKB/TrEMBL
  A6J3T4_RAT UniProtKB/TrEMBL
  GRIK4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q62642 ENTREZGENE
UniProt Secondary Q62642 UniProtKB/Swiss-Prot
1 to 31 of 31 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Grik4  glutamate ionotropic receptor kainate type subunit 4  Grik4  glutamate receptor, ionotropic, kainate 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Grik4  Glutamate receptor, ionotropic, kainate 4      Symbol and Name status set to approved 70586 APPROVED