2024-09-29 10:22:22, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001419807 3089 bp mRNA linear PLN 02-APR-2024 DEFINITION Oryza sativa Japonica Group homeobox-leucine zipper protein ROC4-like (LOC4336705), mRNA. ACCESSION NM_001419807 XM_015781661 VERSION NM_001419807.1 KEYWORDS RefSeq. SOURCE Oryza sativa Japonica Group (Japanese rice) ORGANISM Oryza sativa Japonica Group Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa. REFERENCE 1 (bases 1 to 3089) AUTHORS Wang,Z., Tian,X., Zhao,Q., Liu,Z., Li,X., Ren,Y., Tang,J., Fang,J., Xu,Q. and Bu,Q. TITLE The E3 Ligase DROUGHT HYPERSENSITIVE Negatively Regulates Cuticular Wax Biosynthesis by Promoting the Degradation of Transcription Factor ROC4 in Rice JOURNAL Plant Cell 30 (1), 228-244 (2018) PUBMED 29237723 REMARK GeneRIF: These results suggest a mechanism whereby DHS negatively regulates wax biosynthesis by promoting the degradation of ROC4.[DHS] REFERENCE 2 (bases 1 to 3089) AUTHORS Wei,J., Choi,H., Jin,P., Wu,Y., Yoon,J., Lee,Y.S., Quan,T. and An,G. TITLE GL2-type homeobox gene Roc4 in rice promotes flowering time preferentially under long days by repressing Ghd7 JOURNAL Plant Sci 252, 133-143 (2016) PUBMED 27717449 REMARK GeneRIF: Roc4 is an LD-preferential flowering enhancer that functions downstream of phytochromes and OsGI, but upstream of Ghd7. REFERENCE 3 (bases 1 to 3089) AUTHORS Kikuchi,S., Satoh,K., Nagata,T., Kawagashira,N., Doi,K., Kishimoto,N., Yazaki,J., Ishikawa,M., Yamada,H., Ooka,H., Hotta,I., Kojima,K., Namiki,T., Ohneda,E., Yahagi,W., Suzuki,K., Li,C.J., Ohtsuki,K., Shishiki,T., Otomo,Y., Murakami,K., Iida,Y., Sugano,S., Fujimura,T., Suzuki,Y., Tsunoda,Y., Kurosaki,T., Kodama,T., Masuda,H., Kobayashi,M., Xie,Q., Lu,M., Narikawa,R., Sugiyama,A., Mizuno,K., Yokomizo,S., Niikura,J., Ikeda,R., Ishibiki,J., Kawamata,M., Yoshimura,A., Miura,J., Kusumegi,T., Oka,M., Ryu,R., Ueda,M., Matsubara,K., Kawai,J., Carninci,P., Adachi,J., Aizawa,K., Arakawa,T., Fukuda,S., Hara,A., Hashizume,W., Hayatsu,N., Imotani,K., Ishii,Y., Itoh,M., Kagawa,I., Kondo,S., Konno,H., Miyazaki,A., Osato,N., Ota,Y., Saito,R., Sasaki,D., Sato,K., Shibata,K., Shinagawa,A., Shiraki,T., Yoshino,M., Hayashizaki,Y. and Yasunishi,A. CONSRTM Rice Full-Length cDNA Consortium; National Institute of Agrobiological Sciences Rice Full-Length cDNA Project Team; Foundation of Advancement of International Science Genome Sequencing & Analysis Group; RIKEN TITLE Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice JOURNAL Science 301 (5631), 376-379 (2003) PUBMED 12869764 REMARK Erratum:[Science. 2003 Sep;301(5641):1849] COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from AK112099.1, AB101647.1, AK111914.1, CI122393.1 and CI075179.1. On Apr 19, 2023 this sequence version replaced XM_015781661.2. ##Evidence-Data-START## Transcript exon combination :: AK112099.1, AK111914.1 [ECO:0000332] RNAseq introns :: mixed sample support SAMD00008650, SAMD00020310 [ECO:0006172] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-784 AK112099.1 2-785 785-1412 AB101647.1 649-1276 1413-2269 AK111914.1 1397-2253 2270-2565 CI122393.1 26-321 2566-3089 CI075179.1 44-567 FEATURES Location/Qualifiers source 1..3089 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="4" /map="4" gene 1..3089 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /note="homeobox-leucine zipper protein ROC4-like" /db_xref="GeneID:4336705" exon 1..205 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" CDS 137..2557 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /note="GL2-type homeodomain protein; HD-ZIP protein ROC4; Homeodomain transcription factor ROC4; LOC_Os04g48070; OSJNBb0032E06.7; Protein RICE OUTERMOST CELL-SPECIFIC 4; GLABRA 2-like homeobox protein 4" /codon_start=1 /product="homeobox-leucine zipper protein ROC4" /protein_id="NP_001406736.1" /db_xref="GeneID:4336705" /translation="
MQFPFSGAGPGVFTSSPALSLALADAVAGRNSGGGGKMVTAAHGGVGGGGGGGRAKARDALEVENEMSRSGSDHLDVVSCGDAGGGGGDDDDDEDAEHGNPPKRKKRYHRHTPQQIQELEAMFKECPHPDEKQRAELSKRLGLEPRQVKFWFQNRRTQMKMQLERHENSLLKQENDKLRSENLSIREATSNAVCVGCGGPAMLGEVSLEEHHLRVENARLKDELSRVCALAAKFLGKSISVMAPPQMHQPHPVPGSSLELAVGGIGSMPSATMPISTITDFAGAMSSSMGTVITPMKSEAEPSAMAGIDKSLFLELAMSAMDELVKMAQMGDPLWIPGASVPSSPAKESLNFEEYLNTFPPCIGVKPEGYVSEASRESGIVIIDDGAALVETLMDERRWSDMFSCMIAKASTTEEISTGVAGSRNGALLLMQAELQVLSPLVPIREVKFLRFSKQLADGVWAVVDVSADELMRDQGITSASSTANMNCRRLPSGCVLQDTPNGFVKVTWVEHTEYDEASVHPLYRPLLRSGLALGAGRWIATLQRQCECLALLMSSIALPENDSSAIHPEGKRSMLKLARRMTDNFCAGVSTSSTREWSKLVGLTGNIGEDVHVMARKSVDEPGTPPGVVLSAATSVWMPVMPERLFNFLHNKGLRAEWDILSNGGPMQEVTSIAKGQQNGNTVCLLKASPTKDKQNSMLILQETCADASGSMVVYAPVDIPAMHLVMSGGDSSCVALLPSGFAILPAGPSIGADHKMGGSLLTVAFQILANSQPSAKLTVESVETVSNLISCTIKKIKTALHCDV"
misc_feature 320..472 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /note="propagated from UniProtKB/Swiss-Prot (Q7Y0V9.2); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" misc_feature 449..616 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /note="Region: Homeodomain; pfam00046" /db_xref="CDD:459649" misc_feature 1064..1780 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /note="C-terminal lipid-binding START domain of the Arabidopsis homeobox protein GLABRA 2 and related proteins; Region: START_ArGLABRA2_like; cd08875" /db_xref="CDD:176884" misc_feature order(1148..1153,1196..1198,1259..1261,1265..1267, 1301..1303,1313..1315,1325..1327,1334..1339,1352..1357, 1436..1438,1442..1453,1460..1462,1469..1471,1475..1477, 1481..1483,1529..1531,1598..1600,1604..1615,1619..1621, 1655..1657,1661..1663,1667..1669,1673..1675,1679..1681, 1685..1687,1703..1705,1709..1717,1721..1729,1736..1741, 1748..1750) /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /note="putative lipid binding site [chemical binding]; other site" /db_xref="CDD:176884" exon 206..498 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" exon 499..616 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" exon 617..1324 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" exon 1325..1426 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" exon 1427..1654 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" exon 1655..1832 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" exon 1833..2206 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" exon 2207..3089 /gene="LOC4336705" /gene_synonym="GL2-4; Roc4" /inference="alignment:Splign:2.1.0" ORIGIN
gcacgcactgctgctgctgctcgctctcgctttgcttcccctaatcttctcccgggccaggggggaagaggggcggaattcgggcacgagctttggagttggagatcacttcggcgacggcgtggtccccgccggcatgcagttcccgttctccggcgctggcccgggcgtcttcacgtcatcgccggcgctctccctcgcgctggcggacgcggtggcaggccggaacagcggcggcggtgggaagatggttaccgcggcccatggcggcgtcggcggaggaggaggaggaggacgcgcgaaggcgagggacgcgttggaggtggagaacgagatgagccggtccgggagcgaccacctcgacgtcgtctcttgcggcgacgcgggcggcggcggcggcgacgacgacgatgacgaggacgccgagcacggcaacccgcccaagcgcaagaagcggtaccaccgccacacgccgcagcagatccaagagctggaagcgatgttcaaggaatgcccccacccagacgagaagcagcgcgccgagctgagcaagcggctcggcctcgaaccccggcaggtcaagttctggttccagaatcggcgaacgcagatgaagatgcaactggagcgacacgagaactcgctgctgaagcaggagaacgataagctgcggtccgagaacctgtcaatccgggaggccacgagcaacgcggtgtgcgttggctgcggcggcccggcgatgctcggggaggtgtccctggaggagcaccaccttcgcgtcgagaacgcgaggctcaaggacgagctcagccgagtgtgcgcgctcgccgccaagttccttggcaagtccatctctgtcatggcgccaccgcagatgcatcagcctcatcctgtgccaggctcgtcgctggagcttgcggttgggggtatcggttcgatgccatcagccacgatgcccatctcgacgatcactgattttgctggcgccatgtccagttcaatgggcacggtgatcacgcccatgaagtctgaggctgaaccatcggcaatggctggcattgacaagtccttgttcttggagctagcaatgagtgcaatggatgagctagtcaagatggctcagatgggggatccgctatggattccaggtgcctccgtaccttcctcgccggcaaaggagagtctaaacttcgaggagtacctaaacaccttcccaccttgcatcggggtgaagcctgaagggtatgtatcagaggcatctagagaatctggcattgtcatcattgacgatggcgccgcgcttgtggagaccctcatggatgagcgacggtggtccgatatgttctcatgcatgattgccaaggcatcaaccactgaggagatttctactggtgttgctgggagtagaaatggtgcattgcttcttatgcaggcagagctacaggtgctttctcctcttgtgcctattagagaggtgaagtttctcaggttctccaaacagctggctgatggtgtatgggctgtagtggacgtttcggctgatgaattgatgagggatcagggcattacttctgcatcctcgactgcaaacatgaactgccgaaggctgccttctggttgtgtgctgcaggacactccaaatgggtttgttaaggtcacatgggttgaacatacagaatatgatgaggcatctgtgcacccgctctaccggcctcttctccggtctggtcttgcccttggtgcagggcgatggatcgcgacattacagcggcagtgcgaatgcttggcccttctcatgtcttctattgcattgccagagaacgactcatcagctatccatcctgaaggtaaacggagcatgttgaagttggcaaggaggatgacggacaacttctgtgcaggggtgagcacatcatctacccgtgaatggagcaaactggttggattgacaggcaacattggggaggatgtgcatgtaatggcgcggaagagtgtggatgaacctggaacgccgccaggtgtggtgcttagtgctgctacatctgtgtggatgcctgtgatgcctgaacggctcttcaacttcttgcacaacaaggggctgcgtgctgaatgggatatcctcagcaatggtggccctatgcaggaggtgacaagcattgccaaggggcaacagaatggcaataccgtatgtctactgaaggctagtcccaccaaagacaagcagaacagcatgctgatcctacaggagacgtgtgcagacgcatccggttcaatggttgtgtatgctcctgtagacatcccagcaatgcaccttgtcatgagtggtggggattcgtcatgcgtcgcccttcttccatcaggttttgccatcctgcctgctgggcctagcatcggcgcagatcacaagatgggcggttcattgctcaccgttgcattccagatacttgccaacagccagcccagtgctaagctcacggtggagtcagtcgagaccgtgagcaaccttatctcctgcaccatcaagaagatcaagacggcgctgcattgcgacgtgtgaacccaacaaggggggacttttggcctagtgggagcggctgtggcgatgagcctgagtcaagaacgaaccgcgacataggaagggacctttgctaggtggcaaggaccggacggggcaggtccttagcacagagcaatggtggtggttcgggtattgactcagcctctcccgcctccgttctctcctgtgactggtgcatgttgaagtgaacctgcattttggacgccatgtagcaggccatctttctttctttttcctttttctttttctttttctttttttagggagaagggagtcatctgtgttttttgttggctggctcagggtgttggtgtttctggtttctagcttttgttacagggagatgtgatacattttgtagaagctccgaattgtcgtgctggtatgtgaggttctgatcataggtctgtgtttgatagtctcgagctatcaacgcctggcaaatgcaaaccttgttatgctaaaatatgttttagatcaatctgattctgaaagctgtttacatgtccca
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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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