2024-09-29 10:38:55, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001402028 1588 bp mRNA linear PLN 17-FEB-2024 DEFINITION Oryza sativa Japonica Group homeobox protein knotted-1-like 3 (LOC4331449), mRNA. ACCESSION NM_001402028 VERSION NM_001402028.1 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 1588) 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] REFERENCE 2 (bases 1 to 1588) AUTHORS Ito,Y., Hirochika,H. and Kurata,N. TITLE Organ-specific alternative transcripts of KNOX family class 2 homeobox genes of rice JOURNAL Gene 288 (1-2), 41-47 (2002) PUBMED 12034492 REFERENCE 3 (bases 1 to 1588) AUTHORS Ito,Y., Eiguchi,M. and Kurata,N. TITLE Expression of novel homeobox genes in early embryogenesis in rice JOURNAL Biochim Biophys Acta 1444 (3), 445-450 (1999) PUBMED 10095070 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from AB061819.1 and BT131771.1. ##Evidence-Data-START## Transcript exon combination :: AB061819.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMD00008650, SAMD00020310 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-1468 AB061819.1 1-1468 1469-1588 BT131771.1 226-345 FEATURES Location/Qualifiers source 1..1588 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="3" /map="3" gene 1..1588 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="homeobox protein knotted-1-like 3" /db_xref="GeneID:4331449" exon 1..554 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /inference="alignment:Splign:2.1.0" misc_feature 24..26 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="upstream in-frame stop codon" CDS 195..1139 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="KNOX family class 2 homeodomain protein; LOC_Os03g03164; Homeobox protein HOS66" /codon_start=1 /product="homeobox protein knotted-1-like 3" /protein_id="NP_001388957.1" /db_xref="GeneID:4331449" /translation="
MQGGDHGGMEMGVGSFTGGGGGGECSSSSATAAAAAAAAAAAAAAEAEERQLLKGEIAVHPLCEQLVAAHVGCLRVATPIDHLPLIDAQLAQSSGLLHSYAAHHRPFLSPHDKQELDSFLAQYMMLLCSFREQLQQHVRVHAVEAVMACREIEQSLQDLTGATLEEGTGATMSEDEDETAPMLEGPMDMGSDGHDLMGFGPLMPTDSERSLMERVRQELKIELKQGFKSRIEDVREEILRKRRAGKLPGDTTTILKQWWQQHSKWPYPTEDDKAKLVEETGLQLKQINNWFINQRKRNWHNNSQTSTLKSKRKR"
misc_feature 348..467 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="KNOX1 domain; Region: KNOX1; pfam03790" /db_xref="CDD:461051" misc_feature 519..674 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="KNOX2 domain; Region: KNOX2; pfam03791" /db_xref="CDD:427506" misc_feature order(915..929,933..935,993..995,1011..1013,1050..1052, 1056..1061,1068..1073,1077..1085,1089..1094) /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature order(921..923,930..932,1059..1061,1068..1073,1080..1082) /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" misc_feature 969..1085 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920" /db_xref="CDD:428673" exon 555..675 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /inference="alignment:Splign:2.1.0" exon 676..869 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /inference="alignment:Splign:2.1.0" exon 870..1001 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /inference="alignment:Splign:2.1.0" exon 1002..1578 /gene="LOC4331449" /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16; OsJ_008895; OsJ_008896; OsJ_09228" /inference="alignment:Splign:2.1.0" ORIGIN
gccttctcgctggccattagagctagctagcgagagctctagctacagctatacatacgtgtacccaacggccacggtcacccgcgcgagcgagcacgcgcaccaaccgatcgagcccaacaagctcgctcgctcttggtgcgcgcgcgcgcggcgagttcgatcgatcggtgtatacgcgtatcgtgttgtgtatgcaaggcggtgatcacggaggcatggagatgggcgtggggtcgttcaccggcggcggaggaggcggggagtgctcgtcgtcgtcggcgacggcggcggctgctgcggcggctgcggcggcggcggcggcggcggaggcggaggagcggcagctgctcaagggggagatcgcggtgcacccgctgtgcgagcagctggtggcggcgcacgtgggctgcctgcgcgtggcgacgcccatcgaccacctcccgctgatcgacgcgcagctcgcgcagtccagcggcctcctccactcctacgccgcgcaccaccgccccttcctctccccccacgacaagcaggagctcgactccttcctcgcgcagtacatgatgctgctgtgctcgttcagggagcagctgcagcagcacgtccgggtgcacgccgtggaggccgtcatggcgtgccgcgagatcgagcaatccttgcaggacctaaccggtgcaactttggaggaagggacaggggcgaccatgtcggaggacgaggatgagacggcgccgatgctggagggcccgatggatatgggctcggacgggcacgacctcatgggcttcggcccgctcatgcccaccgactccgagcgatccctcatggagcgggtcaggcaagagctcaagattgagctcaagcagggcttcaagtcaaggattgaggatgtgagagaagaaatattgaggaagaggagggcaggaaagttgcctggggacaccaccaccatactcaagcaatggtggcagcaacactccaagtggccataccccacggaggatgataaggcaaagcttgttgaagagactggcctgcagctcaagcaaatcaacaactggttcatcaatcagagaaagcgtaactggcacaacaactcacagacatcaacccttaaatcaaagcgtaaaaggtaaacaaaccgttatccaagtattttatccacagtaatacaatgttgatgtttcagtaattaacaactgaattataacacaaacttcttttttctatatgtaatacaggtaaagggcagaaaaaaatgtatacctgacgtactcgctaatcaaatcaaaagaagacatggtgactcataagtaataagatcatcttaaattgtatatctagttattaattagtcagaggtgacaaattcatgacatacatactagtctgaccactggcatatgcgttgtaatttttgagcagatatgctcaagcaaattcttcttgttggtatagtttttaattttgttgtcgtgggtgtacctgcatgcatacataaccccaagactaattcatttgctgtgcatatacattgaccattctataaccttctgctagtcaaataatcaaaaaaaaaaaaaaa
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Creative Commons Attribution 4.0 International License (CC BY 4.0).
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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