2024-05-04 17:04:57, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001113184 4141 bp mRNA linear ROD 23-MAR-2023 DEFINITION Rattus norvegicus glutamate ionotropic receptor AMPA type subunit 4 (Gria4), transcript variant 2, mRNA. ACCESSION NM_001113184 VERSION NM_001113184.1 KEYWORDS RefSeq; RefSeq Select. SOURCE Rattus norvegicus (Norway rat) ORGANISM Rattus norvegicus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus. REFERENCE 1 (bases 1 to 4141) AUTHORS Rossner B, Klingler M, Bulat T, Sase A, Zeilinger A, Spitzwieser M, Aradska J, Cichna-Markl M and Lubec G. TITLE Hippocampal GluA2 and GluA4 protein but not corresponding mRNA and promoter methylation levels are modulated at retrieval in spatial learning of the rat JOURNAL Amino Acids 49 (1), 117-127 (2017) PUBMED 27714514 REMARK GeneRIF: Hippocampal GluA2 and GluA4 protein but not corresponding mRNA and promoter methylation levels are modulated at retrieval in spatial learning of the rat. REFERENCE 2 (bases 1 to 4141) AUTHORS Luchkina NV, Coleman SK, Huupponen J, Cai C, Kivisto A, Taira T, Keinanen K and Lauri SE. TITLE Molecular mechanisms controlling synaptic recruitment of GluA4 subunit-containing AMPA-receptors critical for functional maturation of CA1 glutamatergic synapses JOURNAL Neuropharmacology 112 (Pt A), 46-56 (2017) PUBMED 27157711 REMARK GeneRIF: Data show that PKA activation leads to insertion of GluA4 to synaptic sites with initially weak or silent AMPAR-mediated transmission. This suggests that the GluA4-mediated activation of silent synapses is a critical mechanism facilitating the functional maturation of glutamatergic circuitry during the critical period of experience-dependent fine-tuning. REFERENCE 3 (bases 1 to 4141) AUTHORS Herguedas B, Garcia-Nafria J, Cais O, Fernandez-Leiro R, Krieger J, Ho H and Greger IH. TITLE Structure and organization of heteromeric AMPA-type glutamate receptors JOURNAL Science 352 (6285), aad3873 (2016) PUBMED 26966189 REFERENCE 4 (bases 1 to 4141) AUTHORS Chiasserini D, van Weering JR, Piersma SR, Pham TV, Malekzadeh A, Teunissen CE, de Wit H and Jimenez CR. TITLE Proteomic analysis of cerebrospinal fluid extracellular vesicles: a comprehensive dataset JOURNAL J Proteomics 106, 191-204 (2014) PUBMED 24769233 REFERENCE 5 (bases 1 to 4141) AUTHORS Aruscavage PJ and Bass BL. TITLE A phylogenetic analysis reveals an unusual sequence conservation within introns involved in RNA editing JOURNAL RNA 6 (2), 257-269 (2000) PUBMED 10688364 REFERENCE 6 (bases 1 to 4141) AUTHORS Lomeli H, Mosbacher J, Melcher T, Hoger T, Geiger JR, Kuner T, Monyer H, Higuchi M, Bach A and Seeburg PH. TITLE Control of kinetic properties of AMPA receptor channels by nuclear RNA editing JOURNAL Science 266 (5191), 1709-1713 (1994) PUBMED 7992055 REFERENCE 7 (bases 1 to 4141) AUTHORS Gallo V, Upson LM, Hayes WP, Vyklicky L Jr, Winters CA and Buonanno A. TITLE Molecular cloning and development analysis of a new glutamate receptor subunit isoform in cerebellum JOURNAL J Neurosci 12 (3), 1010-1023 (1992) PUBMED 1372042 REFERENCE 8 (bases 1 to 4141) AUTHORS Wenthold RJ, Yokotani N, Doi K and Wada K. TITLE Immunochemical characterization of the non-NMDA glutamate receptor using subunit-specific antibodies. Evidence for a hetero-oligomeric structure in rat brain JOURNAL J Biol Chem 267 (1), 501-507 (1992) PUBMED 1309749 REFERENCE 9 (bases 1 to 4141) AUTHORS Sommer B, Keinanen K, Verdoorn TA, Wisden W, Burnashev N, Herb A, Kohler M, Takagi T, Sakmann B and Seeburg PH. TITLE Flip and flop: a cell-specific functional switch in glutamate-operated channels of the CNS JOURNAL Science 249 (4976), 1580-1585 (1990) PUBMED 1699275 REFERENCE 10 (bases 1 to 4141) AUTHORS Keinanen K, Wisden W, Sommer B, Werner P, Herb A, Verdoorn TA, Sakmann B and Seeburg PH. TITLE A family of AMPA-selective glutamate receptors JOURNAL Science 249 (4968), 556-560 (1990) PUBMED 2166337 COMMENT REVIEWED REFSEQ: This record has been curated by NCBI staff. The reference sequence was derived from CB761818.1, BC093608.1, M36421.1, CK598329.1, M85037.1, BF413680.1, BF390245.1 and BF390683.1. Summary: Glutamate receptors are the predominant excitatory neurotransmitter receptors in the mammalian brain and are activated in a variety of normal neurophysiologic processes. These receptors are heteromeric protein complexes composed of multiple subunits, arranged to form ligand-gated ion channels. The classification of glutamate receptors is based on their activation by different pharmacologic agonists. The subunit encoded by this gene belongs to a family of AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate)-sensitive glutamate receptors, and is subject to RNA editing (AGA->GGA; R->G). Alternative splicing of this gene results in transcript variants encoding different isoforms, which may vary in their signal transduction properties. [provided by RefSeq, Jul 2008]. Transcript Variant: This variant (2) uses an alternate internal coding exon compared to transcript variant 1, and encodes an isoform (2, also known as flop isoform) that is the same length, but with a few amino acid differences compared to isoform 1. RNA editing (AGA->GGA) changes Arg765Gly. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## RNAseq introns :: mixed/partial sample support SAMEA5760383, SAMEA5760386 [ECO:0000350] ##Evidence-Data-END## ##RefSeq-Attributes-START## RefSeq Select criteria :: based on conservation, expression, longest protein undergoes RNA editing :: PMID: 10688364 ##RefSeq-Attributes-END## COMPLETENESS: complete on the 3' end. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-28 CB761818.1 1-28 29-1719 BC093608.1 1-1691 1720-2650 M36421.1 1270-2200 2651-3171 CK598329.1 33-553 3172-3249 M85037.1 2883-2960 3250-3671 BF413680.1 11-432 c 3672-3993 BF390245.1 146-467 c 3994-4141 BF390683.1 1-148 c FEATURES Location/Qualifiers source 1..4141 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="Sprague-Dawley" /db_xref="taxon:10116" /chromosome="8" /map="8q11" gene 1..4141 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="glutamate ionotropic receptor AMPA type subunit 4" /db_xref="GeneID:29629" /db_xref="RGD:61863" exon 1..361 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 362..538 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" misc_feature 385..387 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="upstream in-frame stop codon" CDS 451..3159 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="isoform 2 precursor is encoded by transcript variant 2; glutamate receptor, ionotropic, AMPA4 (alpha 4); AMPA-selective glutamate receptor 4; glutamate receptor, ionotrophic, AMPA 4; glutamate receptor, ionotropic, AMPA 4" /codon_start=1 /product="glutamate receptor 4 isoform 2 precursor" /protein_id="NP_001106655.1" /db_xref="GeneID:29629" /db_xref="RGD:61863" /translation="
MRIICRQIVLLFSGFWGLAMGAFPSSVQIGGLFIRNTDQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFPTEGESQFVLQLRPSLRGALLSLLDHYEWNCFVFLYDTDRGYSILQAIMEKAGQNGWHVSAICVENFNDVSYRQLLEELDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISLERFIHGGANVTGFQLVDFNTPMVTKLMDRWKKLDQREYPGSETPPKYTSALTYDGVLVMAETFRSLRRQKIDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNVQFDHYGRRVNYTMDVFELKSTGPRKVGYWNDMDKLVLIQDMPTLGNDTAAIENRTVVVTTIMESPYVMYKKNHEMFEGNDKYEGYCVDLASEIAKHIGIKYKIAIVPDGKYGARDADTKIWNGMVGELVYGKAEIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEPEDGKEGPSDQPPNEFGIFNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIAVYEKMWTYMRSAEPSVFTRTTAEGVARVRKSKGKFAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGVATPKGSSLRNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMKLTFSEAIRNKARLSITGSVGENGRVLTPDCPKAVHTGTAIRQSSGLAVIASDLP"
sig_peptide 451..513 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="COORDINATES: ab initio prediction:SignalP:4.0" mat_peptide 514..3156 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /product="glutamate receptor 4 isoform 2" misc_feature 532..1650 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="N-terminal leucine-isoleucine-valine binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor; Region: PBP1_iGluR_AMPA_GluR4; cd06388" /db_xref="CDD:380611" misc_feature order(673..681,688..693,700..702,775..777,784..786, 922..924,952..954,961..966,973..978,997..999,1003..1005, 1048..1050,1438..1446,1450..1452,1456..1458) /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="putative tetramer interface [polypeptide binding]; other site" /db_xref="CDD:380611" misc_feature order(676..681,700..702,775..777,787..789,922..924, 940..942,952..954,961..966,970..978,991..996,1000..1002, 1060..1062,1441..1455) /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="putative dimer interface [polypeptide binding]; other site" /db_xref="CDD:380611" misc_feature 1690..2835 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtype GluR4 of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_iGluR_AMPA_GluR4; cd13727" /db_xref="CDD:270445" misc_feature order(1864..1866,1948..1956,1969..1971,2464..2466, 2473..2481,2626..2631,2638..2640,2710..2712) /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="peptide binding site [polypeptide binding]; other site" /db_xref="CDD:270445" misc_feature order(1957..1965,1972..1974,1987..1998,2701..2703, 2743..2745,2755..2760,2767..2769,2776..2781) /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="dimer interface [polypeptide binding]; other site" /db_xref="CDD:270445" misc_feature order(1993..2007,2767..2769,2776..2778,2791..2796, 2803..2805) /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="putative ligand binding site [chemical binding]; other site" /db_xref="CDD:270445" exon 539..697 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 698..937 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 938..1122 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 1123..1176 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 1177..1335 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 1336..1503 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 1504..1608 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 1609..1719 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 1720..1926 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 1927..2297 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 2298..2496 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 2497..2744 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" misc_feature 2744 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /note="RNA editing at nt 2744 (AGA->GGA) changes Arg765Gly; Region: RNA editing site" exon 2745..2859 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 2860..2994 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" exon 2995..4125 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" /inference="alignment:Splign:2.1.0" regulatory 4095..4100 /regulatory_class="polyA_signal_sequence" /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" polyA_site 4125 /gene="Gria4" /gene_synonym="GluA4; GluR-D; GluR4" ORIGIN
gctgagtggaaagagctaggagccgggaggcagcctgtcctccctcaagcctgcaaggatgcggcaggggactgagaccatggggaggtgctaacttcctcttcaaccccccagcccgggatccgggctggcatacccggccccccgggctagtttcctgccaagcgcaaccaagaagccaaaggcgatttggagggcataaaaagaaaaagagtggttctggagaggggtgcccacctccagagccggtccctctgcaaacaggcaaagataggagaaaggggatcagatactggagtgtacgcaaaatcctctgtctgtggactcgcaccagagcctcccagaaaacctgggcgatctgcgccatcgtcttcaatgcctctctgaaaagcctttagcaagactgagagaaagagaaaagagagcgcgccagagagaggagcaaagaagatgaggattatttgcaggcagattgtcttgttgttttctggattttggggactcgccatgggagcctttccaagcagcgttcaaataggtggtctcttcatccgaaacacagaccaggaatacactgcttttagactggcaatctttcttcataacaccagccccaatgcatcggaagctcctttcaatttggtacctcatgtggacaacattgagactgccaacagttttgctgtgacaaacgccttctgttcccagtattctagaggggtgtttgccatttttggactctatgacaagagatccgtgcataccttgacctcgttctgcagtgctctgcacatctctctcatcacaccaagctttcccactgaaggggagagccagtttgtgctgcagctaagaccttcactgagaggtgcactcctgagcctcctggatcactatgagtggaactgtttcgtcttcctgtatgatacagacagggggtattcaatacttcaagctataatggaaaaagcaggacaaaatggatggcatgtcagtgcaatatgtgtggaaaattttaatgatgtcagctacaggcaactgctagaagagcttgacagaagacaagagaagaaatttgtgatagattgtgagatagagaggcttcaaaacattttagaacaaattgtgagtgttgggaagcatgtcaaaggctaccattatatcatcgcaaatttgggtttcaaggatatttctcttgagagatttatacatggaggagcaaatgtaacaggattccagttggtagattttaatacacccatggtaaccaaactaatggatcggtggaagaaactagatcagagagaatatccaggttctgaaacacctccaaagtacacctctgctctcacttatgatggagtcctggtgatggctgaaactttccgaagtctcagaagacagaaaattgatatttcaaggagaggaaatgctggggactgtctggcaaaccctgctgctccctggggccagggaattgacatggagaggacactgaagcaggttcgaattcaagggctgactgggaatgttcaatttgaccattatggacgtagagttaattacacaatggatgtgtttgaactgaaaagcacaggacctcgaaaggttggctactggaatgatatggataaattagtcttgattcaagatatgcctactcttggcaatgacacagcagctattgagaacagaacagtggttgtaaccacaattatggaatctccctatgttatgtacaagaaaaatcatgaaatgtttgaaggaaatgacaagtacgaaggctactgtgtagatctggcatcggaaattgcaaaacatattggtatcaaatataaaattgccattgttcctgatggaaaatatggagcaagggacgcagacactaagatctggaatgggatggtaggagagcttgtgtatgggaaagcagagattgctattgcccctctgacaatcacattggttcgagaggaagtcatcgatttttctaagccttttatgagtttaggcatctctatcatgatcaaaaaacctcagaaatctaaaccaggagtcttttccttcttggaccctctggcctatgagatctggatgtgcatagtgtttgcatacattggtgtcagtgtggtcttgttcctagtcagtaggtttagcccatatgagtggcacacagaagaacctgaggatgggaaggaaggacccagtgaccagcctcccaatgaatttggcatctttaacagcctttggttttccctgggtgcctttatgcaacaaggatgtgacatttcacccagatccctgtcaggtcggattgttggaggcgtgtggtggttcttcacactcatcattatatcgtcctacactgctaatctggctgcattccttactgtggagagaatggtctcccccatagaaagtgcagaagacctggccaaacaaacagaaattgcctatggaacacttgattctgggtcaacaaaagaattcttcagaagatcaaaaatagcagtgtatgaaaagatgtggacctacatgcgatcggcagagccgtctgtgttcactagaactacagctgagggcgtggctcgtgtccgcaagtccaagggcaaatttgcctttctcctggagtccacgatgaatgaatacattgagcagcgaaagccctgtgacacgatgaaagtgggaggaaacctggattccaaaggctatggtgtagcaacgcccaagggttcctcattaagaaatgctgttaacctcgcagttttaaaactgaatgaacaaggcctcttggacaaattgaaaaacaaatggtggtacgacaaaggagaatgtggcagcgggggaggtgactccaaggacaagacgagtgccttgagcctgagcaacgtagcaggcgtcttctacattctggttggcggcctgggcttggcaatgctggtggctttgatagagttctgttacaagtccagggcagaggcgaagagaatgaagctgactttttccgaagccataagaaacaaagccaggttatccatcactgggagtgtgggagaaaacggccgtgtgctgacccctgactgccccaaggccgtacacacaggaactgcaattagacaaagttcgggattggctgtcattgcatcggacctaccataaaaaccaaaaaaataattgagtgccttaatcaaactgtgttggtgactgactgaaacgcagccctgagggaaaggccaagagtgggtcttggctaaatccatcctttggcttgagagcaggaagagcatactgagtgccggacagaaccagtgcatgatttcagcacggaaatgcagactcggatttttttttatcaggaaaactcacaatttagtttttttggggatagagggtgggggatagctgggataggtgtattaacagcaacaaatttcacatgagcgcacttaaaactaatcagactggtcagttagtgcattaaactgtgaagttctttctcagaaaggtcttagtcactacagcaacagattcaacagttactagaggtcaaggaaccttctacctgtgtctccagaacacccatttagtcgatggcataatctgcagctgaaacaagcagtcactaagatgtgataagaaaataataaatatgtaaatcctgtgaaaaaaaacaacaaaatttaaagaaagtatttacagttactttggaaataaaacaatactgaaacatgcttgctttttaactgaagtaaatccagtagaggacaacacaattgttttttctaaccatcttagggaacaatacattgcaataattgataataatgccatcactgtaataaactttagagacttttttttaatgtaaaagttgtttgtcaccttgtttcctgtaaccttcactctgtcacacaagttggctcataggttgtgtttgtctatcagaaacaacaacaaaaaaaatgaagaaaatgttggcatgaagtcatccatctgcaacgtagaatttaaaagactacgggtcattcatgttatcaatataatttataatcctgttctgtgtacaaaattgtggttttgtacccacccaaaagaataaaacaacagtttttcttacagtacctaaaaaaaaaaaaaaaaa
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If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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