2024-05-04 18:20:18, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001009967 4343 bp mRNA linear ROD 22-MAR-2023 DEFINITION Rattus norvegicus phosphatidylinositol-4-phosphate 5-kinase type 1 gamma (Pip5k1c), transcript variant c, mRNA. ACCESSION NM_001009967 XM_234925 VERSION NM_001009967.2 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 4343) AUTHORS Tan X, Sun Y, Thapa N, Liao Y, Hedman AC and Anderson RA. TITLE LAPTM4B is a PtdIns(4,5)P2 effector that regulates EGFR signaling, lysosomal sorting, and degradation JOURNAL EMBO J 34 (4), 475-490 (2015) PUBMED 25588945 REFERENCE 2 (bases 1 to 4343) AUTHORS Wang Y, Zhao L, Suzuki A, Lian L, Min SH, Wang Z, Litvinov RI, Stalker TJ, Yago T, Klopocki AG, Schmidtke DW, Yin H, Choi JK, McEver RP, Weisel JW, Hartwig JH and Abrams CS. TITLE Platelets lacking PIP5KIgamma have normal integrin activation but impaired cytoskeletal-membrane integrity and adhesion JOURNAL Blood 121 (14), 2743-2752 (2013) PUBMED 23372168 REFERENCE 3 (bases 1 to 4343) AUTHORS Saheki Y and De Camilli P. TITLE Synaptic vesicle endocytosis JOURNAL Cold Spring Harb Perspect Biol 4 (9), a005645 (2012) PUBMED 22763746 REMARK Review article Publication Status: Online-Only REFERENCE 4 (bases 1 to 4343) AUTHORS Unoki T, Matsuda S, Kakegawa W, Van NT, Kohda K, Suzuki A, Funakoshi Y, Hasegawa H, Yuzaki M and Kanaho Y. TITLE NMDA receptor-mediated PIP5K activation to produce PI(4,5)P is essential for AMPA receptor endocytosis during LTD JOURNAL Neuron 73 (1), 135-148 (2012) PUBMED 22243752 REFERENCE 5 (bases 1 to 4343) AUTHORS Volpicelli-Daley LA, Lucast L, Gong LW, Liu L, Sasaki J, Sasaki T, Abrams CS, Kanaho Y and De Camilli P. TITLE Phosphatidylinositol-4-phosphate 5-kinases and phosphatidylinositol 4,5-bisphosphate synthesis in the brain JOURNAL J Biol Chem 285 (37), 28708-28714 (2010) PUBMED 20622009 REFERENCE 6 (bases 1 to 4343) AUTHORS Di Paolo G, Moskowitz HS, Gipson K, Wenk MR, Voronov S, Obayashi M, Flavell R, Fitzsimonds RM, Ryan TA and De Camilli P. TITLE Impaired PtdIns(4,5)P2 synthesis in nerve terminals produces defects in synaptic vesicle trafficking JOURNAL Nature 431 (7007), 415-422 (2004) PUBMED 15386003 REFERENCE 7 (bases 1 to 4343) AUTHORS Giudici ML, Emson PC and Irvine RF. TITLE A novel neuronal-specific splice variant of Type I phosphatidylinositol 4-phosphate 5-kinase isoform gamma JOURNAL Biochem J 379 (Pt 2), 489-496 (2004) PUBMED 14741049 REFERENCE 8 (bases 1 to 4343) AUTHORS Krauss M, Kinuta M, Wenk MR, De Camilli P, Takei K and Haucke V. TITLE ARF6 stimulates clathrin/AP-2 recruitment to synaptic membranes by activating phosphatidylinositol phosphate kinase type Igamma JOURNAL J Cell Biol 162 (1), 113-124 (2003) PUBMED 12847086 REFERENCE 9 (bases 1 to 4343) AUTHORS Wenk MR, Pellegrini L, Klenchin VA, Di Paolo G, Chang S, Daniell L, Arioka M, Martin TF and De Camilli P. TITLE PIP kinase Igamma is the major PI(4,5)P(2) synthesizing enzyme at the synapse JOURNAL Neuron 32 (1), 79-88 (2001) PUBMED 11604140 REFERENCE 10 (bases 1 to 4343) AUTHORS Ishihara H, Shibasaki Y, Kizuki N, Wada T, Yazaki Y, Asano T and Oka Y. TITLE Type I phosphatidylinositol-4-phosphate 5-kinases. Cloning of the third isoform and deletion/substitution analysis of members of this novel lipid kinase family JOURNAL J Biol Chem 273 (15), 8741-8748 (1998) PUBMED 9535851 COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CB557931.1, AY850259.1, CK366332.1, BC101909.1, CB581409.1 and CB696331.1. On Aug 5, 2006 this sequence version replaced NM_001009967.1. 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 SAMD00132261, SAMD00132262 [ECO:0000350] ##Evidence-Data-END## ##RefSeq-Attributes-START## RefSeq Select criteria :: based on conservation ##RefSeq-Attributes-END## COMPLETENESS: complete on the 3' end. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-61 CB557931.1 12-72 62-507 AY850259.1 1-446 508-630 CK366332.1 497-619 631-714 AY850259.1 570-653 715-716 CK366332.1 705-706 717-1133 AY850259.1 656-1072 1134-1536 BC101909.1 1106-1508 1537-2057 AY850259.1 1476-1996 2058-2125 CB581409.1 143-210 2126-2400 BC101909.1 1942-2216 2401-2561 CB696331.1 265-425 2562-4343 BC101909.1 2378-4159 FEATURES Location/Qualifiers source 1..4343 /organism="Rattus norvegicus" /mol_type="mRNA" /db_xref="taxon:10116" /chromosome="7" /map="7q11" gene 1..4343 /gene="Pip5k1c" /note="phosphatidylinositol-4-phosphate 5-kinase type 1 gamma" /db_xref="GeneID:314641" /db_xref="RGD:1309938" exon 1..155 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" CDS 62..2128 /gene="Pip5k1c" /EC_number="2.7.1.68" /note="isoform c is encoded by transcript variant c; PIP5KIgamma; ptdInsPKIgamma; ptdIns(4)P-5-kinase gamma; PIP5K1-gamma; ptdIns(4)P-5-kinase 1 gamma; phosphatidylinositol 4-phosphate 5-kinase type I gamma" /codon_start=1 /product="phosphatidylinositol 4-phosphate 5-kinase type-1 gamma isoform c" /protein_id="NP_001009967.2" /db_xref="GeneID:314641" /db_xref="RGD:1309938" /translation="
MELEVPDEAESAEAGAVTAEAAWSAESGAAAGMTQKKAILAEAPLVTGQPGPGHGKKLGHRGVDASGETTYKKTTSSTLKGAIQLGIGYTVGNLSSKPERDVLMQDFYVVESIFFPSEGSNLTPAHHFQDFRFKTYAPVAFRYFRELFGIRPDDYLYSLCNEPLIELSNPGASGSVFYVTSDDEFIIKTVMHKEAEFLQKLLPGYYMNLNQNPRTLLPKFYGLYCVQSGGKNIRVVVMNNVLPRVVKMHLKFDLKGSTYKRRASKKEKEKSLPTYKDLDFMQDMPEGLLLDSDTFGALVKTLQRDCLVLESFKIMDYSLLLGVHNIDQQERERQAEGAQSKADEKRPVAQKALYSTAMESIQGGAARGEAIETDDTMGGIPAVNGRGERLLLHIGIIDILQSYRFIKKLEHTWKALVHDGDTVSVHRPSFYAERFFKFMSSTVFRKSSSLKSSPSKKGRGALLAVKPLGPTAAFSASQIPSEREDVQYDLRGARSYPTLEDEGRPDLLPCTPPSFEEATTASIATTLSSTSLSIPERSPSDTSEQPRYRRRTQSSGQDGRPQEELHAEDLQKITVQVEPVCGVGVVVPKEQGAGVEVPPSGASAAATVEVDAASQASEPASQASDEEDAPSTDIYFFAHGRYWLFSPRRRRLRAVTPSHTGAPTDERSWVYSPLHYSARPASDGESDT"
misc_feature 203..274 /gene="Pip5k1c" /note="propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" misc_feature 287..1408 /gene="Pip5k1c" /note="Phosphatidylinositol phosphate kinase (PIPK) catalytic domain found in phosphatidylinositol 4-phosphate 5-kinase type-1 gamma (PIP5K1gamma) and similar proteins; Region: PIPKc_PIP5K1C; cd17308" /db_xref="CDD:340445" misc_feature order(359..376,380..382,488..490,668..670,677..682, 692..697,971..973,980..982,992..994) /gene="Pip5k1c" /note="dimer interface [polypeptide binding]; other site" /db_xref="CDD:340445" misc_feature order(569..580,584..586,590..592,617..619,623..625, 773..784,818..820,881..883,1019..1021,1250..1255) /gene="Pip5k1c" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:340445" misc_feature 854..856 /gene="Pip5k1c" /note="N6-acetyllysine. /evidence=ECO:0000250|UniProtKB:O60331; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); acetylation site" misc_feature 863..865 /gene="Pip5k1c" /note="N6-acetyllysine. /evidence=ECO:0000250|UniProtKB:O60331; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); acetylation site" misc_feature 1436..1438 /gene="Pip5k1c" /note="Asymmetric dimethylarginine, alternate. /evidence=ECO:0000250|UniProtKB:O70161; Omega-N-methylarginine, alternate. /evidence=ECO:0000250|UniProtKB:O70161; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); methylation site" misc_feature 1634..1756 /gene="Pip5k1c" /note="propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" misc_feature 1721..1723 /gene="Pip5k1c" /note="Phosphoserine. /evidence=ECO:0007744|PubMed:22673903; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); phosphorylation site" misc_feature 1835..1948 /gene="Pip5k1c" /note="propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" misc_feature 1964..1966 /gene="Pip5k1c" /note="Phosphotyrosine, by EGFR. /evidence=ECO:0000250|UniProtKB:O70161; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); phosphorylation site" misc_feature 2072..2074 /gene="Pip5k1c" /note="Phosphotyrosine, by CSK. /evidence=ECO:0000250|UniProtKB:O60331; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); phosphorylation site" misc_feature 2075..2077 /gene="Pip5k1c" /note="Phosphoserine, by CDK5, MAPK1 and CDK1. /evidence=ECO:0000250|UniProtKB:O60331; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); phosphorylation site" misc_feature 2105..2107 /gene="Pip5k1c" /note="Phosphoserine. /evidence=ECO:0007744|PubMed:22673903; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); phosphorylation site" misc_feature 2117..2119 /gene="Pip5k1c" /note="Phosphoserine. /evidence=ECO:0007744|PubMed:22673903; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); phosphorylation site" misc_feature 2123..2125 /gene="Pip5k1c" /note="Phosphothreonine. /evidence=ECO:0007744|PubMed:22673903; propagated from UniProtKB/Swiss-Prot (Q5I6B8.1); phosphorylation site" exon 156..187 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 188..280 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 281..411 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 412..529 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 530..682 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 683..982 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 983..1188 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1189..1272 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1273..1321 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1322..1406 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1407..1568 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1569..1707 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1708..1740 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1741..1842 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1843..1969 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 1970..2047 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 2048..2125 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" exon 2126..4333 /gene="Pip5k1c" /inference="alignment:Splign:2.1.0" ORIGIN
gccgagctcgggtgcatcctcgggcccgccgccgccgccgctgccgccggagcgcgcggccatggagctagaggtgccggacgaggcagagagcgccgaagcaggggccgtgacagcggaggcggcctggtctgcggagagtggggcggcggcaggtatgacccagaagaaggctatccttgcagaggccccgttggtgacagggcagccaggccctggccatgggaagaagctgggccatcgaggcgtggatgcgtctggagagactacgtataagaagaccacctcgtccaccctgaagggtgccatccaactggggattgggtacacggtgggcaacctcagctctaagccagaacgcgatgtgctcatgcaggacttctatgtggtggagagcatcttctttcccagcgaagggagcaaccttacccccgcccaccacttccaggatttccgtttcaagacctatgcacctgttgccttccgttacttccgggagctctttggtatccgtccggacgattacttgtactcactctgcaacgagccactcattgagctgtccaacccgggtgccagtggctccgtcttctacgtcaccagcgatgacgagttcatcattaagactgtcatgcacaaggaggcggagttcctgcagaaactgctgcctggctactatatgaacctcaaccagaacccccggaccttgctgcccaagttctatgggctgtactgtgtgcagtccggcggcaagaacattcgagtggtggtcatgaacaatgtgctgccccgtgtcgtcaagatgcacctcaagttcgacctcaagggctccacgtacaagcgcagggccagcaagaaggagaaggagaagagcctgcccacctacaaggacctggacttcatgcaggacatgccagaggggctgctactggactctgacacctttggcgccctggtcaagacgctgcagcgagactgcctggtgttggagagcttcaagataatggactacagcctgctgctgggtgtgcacaacattgaccagcaggagcgggagcgccaggccgagggcgcccagagcaaggctgacgagaagcggccggtggcccagaaggccctctactccacagccatggagtccattcagggcggagctgcccgtggggaggccattgagacagatgacacgatgggtgggatcccagccgtgaatgggcgtggggagcgcttgctcctacacatcggaatcattgacattctgcagtcctacaggttcatcaagaagttagaacacacctggaaggccctcgtccacgatggggataccgtctcagtccaccggcccagcttctatgccgagcgcttcttcaagttcatgagcagcacggtcttccggaagagttcctccctcaagtcctctccatctaagaaagggcgtggcgccctgctcgcagtcaagcccctggggcccaccgcagccttctcagctagccagatccccagtgagagagaggatgtgcagtacgacctgcggggggcccgcagctaccccacgctggaggatgaaggccggcctgacctcctgccctgcaccccaccgtcctttgaggaagccaccacagcctctatcgccaccaccctgtcatccacctccctctccatcccagagcggtccccttcagacacatcagagcagccccggtacaggcggcgtacgcagtcttcaggccaggatggccggccccaggaggagctgcatgcggaagacctgcagaagataactgtgcaggtggagccagtgtgtggtgtgggggttgtcgtccccaaggagcagggtgcaggagtggaggttcccccatctggggcatcggcagcagccacggtggaagtagacgctgccagccaggcctcagagcccgccagccaagcctctgatgaggaagatgcgccttccacagacatctattttttcgcccacgggagatactggcttttctctccccgtcgtcgccgactgcgggccgtgacaccaagccacacaggcgctcccaccgacgagaggagctgggtgtactccccgcttcactatagcgcacggcccgcctccgacggcgagagcgacacataacttctatgcagtccccaatctggagcccagcgtccttctgccaccccagccacttcctggaggcgctgccccccactggggctcagagctcagcgacatcaccccgatggccctggcccgaccttgttctctccctccccactgacggacgccattggccaggcccagccccaggataggtcaggcctccatctgctgctacctgtgcctgttggggcggcaagatttggagtgcacattctgtatttattttgggtccacccctcccccccctttttttggacggagagggagcacaggagtgtttttctaggaaaaagacaagacacaaaaaacccaggaagaggctgcagccaccagccttggtggatcaggttctatgtgtctcagtaccctggggacagtggccaggtagctccagtaaaccccacacactccagagctcgttatgactggcagaggagacaggccctggagccgcggcttgccgtcccgggtctgtgttcctgagttgggtcgcctcaacagagcccctccttcacctcaggtttgggacccaagcaaaccaggactagtcatgccctgtggtctttctgcatctgtttactgccactggaaggatgtccctacgcatgtcttgtggctacaatcacctgatgctgactgggaggttccatattgtctgcctctcatccccatgaaaccctgagctggtgctgtgggtcccctcaactcccagggaaatctctgcccccaagaagggcacagccaggcttcaggctgcagagtgagagtttggtccttaccttggttgaagagagtaagaaagggacatcacctcagcaaagccaaccatatctactgaccaccagggagatcgcagcaagcattctccgctgggcagaccccagtgtgttgggtgcagtccagctatgctatgcctctgtttcgtggatgttccacccacggtaggcggagtcaagcaggaatgttctgaaagcacgcagccacaggacacaacctttgggtcagcttcatgggcctcttgggttgcaccttcagggacaggggctatctggcttccaaggactgtagcagcctgtggaggcagtgtggagcatgacactgccatcgtggccagaaaaggcatggccagggagaggacccctggagggggagagtaggagagatgggcagatgcctgtccctggacctcacatcagcccccttcctgttgaggaatgcacagtgaacacaccgtggggagctgctgcatgagttaactaaggggttggggcttgcacacaccaggcaagcatgtcacacctgccatccctgaacttggaaagttaaggcaggagggttgtggcaagttccaggctcgcgtgggttagagtaaaacgagaccaaaaggaaaaaaaaaatcacagggctggccctaccactcagtgggcagaactcacccagctgcataaaccctgagttccattccagcaccacagaaaccagattgggaggcacacagctgccatccctcgcttgggaaacaggcagaaagagcaggagtgcaaggccatccttggctgtatccagttgaaggccagcctgggctacatgagactctctcaaaagagaatctgtaaatatcttcgtgaccccacctcccatcctgttctctatgatggccgctatcgccccaccgtggacggtgtgtgaactgtactgtaaaggcctgcctgggggcgcctccaaggctgaagaggtgccctccccggcccgcctctgttctcctcaagccatcccagcaagtcccctgtccagccccacaccaacctcagtgcaatatgcccttcccgtggggtcccctggcacggtactgtctctgcagccccttgtctcttacccctagctcctctctcccagtggttaaaaatcacatcgcacatcctcccccacatcctgtttttattgttgaatccattctgtaaactacaaacctcctgtgtcttactcatcaggaatagggatcccgggtcctcagcccatgtgatctggtgtttgacaatccaagtacagtgtccccttggcaccaaccagtggggcctgtccctccagcgcagccggcaaatgtatgcagcccaggttcccgctccacctgtcacacccctctttttgagatctgtaataaatctctaataagaaacaaaaaaaaaaa
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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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