2024-09-29 10:20:07, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001422529 1612 bp mRNA linear PLN 14-JUN-2024 DEFINITION Oryza sativa Japonica Group homeobox protein knotted-1-like 13 (LOC4345191), transcript variant 2, mRNA. ACCESSION NM_001422529 XM_015795215 VERSION NM_001422529.1 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 1612) AUTHORS Jantasuriyarat,C., Gowda,M., Haller,K., Hatfield,J., Lu,G., Stahlberg,E., Zhou,B., Li,H., Kim,H., Yu,Y., Dean,R.A., Wing,R.A., Soderlund,C. and Wang,G.L. TITLE Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction JOURNAL Plant Physiol 138 (1), 105-115 (2005) PUBMED 15888683 REFERENCE 2 (bases 1 to 1612) 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 CB685002.1, AK111645.1, CB666681.1, AP014964.1, CB681933.1 and CV724024.1. On Jun 15, 2023 this sequence version replaced XM_015795215.2. ##Evidence-Data-START## RNAseq introns :: single sample supports all introns SAMD00008650, SAMD00020310 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-62 CB685002.1 22-83 63-111 AK111645.1 29-77 112-345 CB666681.1 57-290 346-564 AP014964.1 11759038-11759256 565-699 AK111645.1 78-212 700-1126 CB681933.1 407-833 c 1127-1500 CV724024.1 105-478 c 1501-1612 AK111645.1 1014-1125 FEATURES Location/Qualifiers source 1..1612 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="8" /map="8" gene 1..1612 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="homeobox protein knotted-1-like 13" /db_xref="GeneID:4345191" exon 1..610 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /inference="alignment:Splign:2.1.0" misc_feature 101..103 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="upstream in-frame stop codon" CDS 377..1192 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="isoform 2 is encoded by transcript variant 2; OSJNBb0075O18.121; Homeobox protein OSH45; LOC_Os08g19650" /codon_start=1 /product="homeobox protein knotted-1-like 13 isoform 2" /protein_id="NP_001409458.1" /db_xref="GeneID:4345191" /translation="
MGGGGEADAARCKAEILAHPLYEQLLSAHVACLRIATPVDQLPRIDAQLAQSQGVVAKYSALAAAAAGDDGRELDQFMTHYVLLLCSFKEQLQQHVRVHAMEAVMACWELEQNLQSLTGASPGEGTGATMSDGEDDQADSEANMYDPSLDGADNMGFGLPTESERSLMERVRQELKHELKQGYKEKLIDIREEILRKRRAGKLPGDTTSTLKAWWQSHAKWPYPTEEDKARLVQETGLQLKQINNWFINQRKRNWHSNPSSSTSVKTKRKR"
misc_feature 413..526 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="KNOX1 domain; Region: KNOX1; pfam03790" /db_xref="CDD:461051" misc_feature 578..730 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="KNOX2 domain; Region: KNOX2; pfam03791" /db_xref="CDD:427506" misc_feature 896..961 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="ELK domain; Region: ELK; pfam03789" /db_xref="CDD:427504" misc_feature order(965..979,983..985,1043..1045,1061..1063,1100..1102, 1106..1111,1118..1123,1127..1135,1139..1144) /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature order(971..973,980..982,1109..1111,1118..1123,1130..1132) /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" misc_feature 1019..1135 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920" /db_xref="CDD:428673" exon 611..731 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /inference="alignment:Splign:2.1.0" exon 732..919 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /inference="alignment:Splign:2.1.0" exon 920..1051 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /inference="alignment:Splign:2.1.0" exon 1052..1188 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /inference="alignment:Splign:2.1.0" exon 1189..1612 /gene="LOC4345191" /gene_synonym="OJ1705_A03.8; OSH45" /inference="alignment:Splign:2.1.0" ORIGIN
ggctttttgcctaccctcctcttcctctacacctcatactcctagctctctacctctctagctagctagctataggtagctagctagtcctcctgctacctaggggggcgacgccgccggacggggaggaggccatggcgttccacggtcacctcccgcacgagatgaccatgcaggcgctcggcgcggacgacgcggcggtggcggcggcggcggcggcgggtggggtcggggcaggcggggcgccggcgtggatgaggtacaacgacgggagcttcctgcacctgcagaccacgtcggactcgtcggcgtcgccgtctggcgctgcggctgcggcggcggctgcggcggcggcgaggacgcggtggcggccgcgatgggcggcggcggcgaggcggacgcggcgcggtgcaaggcggagatactggcgcacccgctgtacgagcagctgctgtcggcgcacgtggcgtgcctccgcatcgccaccccggtcgaccagctcccccgcatcgacgcgcagctcgcgcagtcgcagggcgtcgtcgccaagtactccgccctcgccgccgccgccgccggggacgacggccgcgagctcgaccagttcatgacgcactacgtcttgctattatgttcgtttaaagagcagctacagcagcatgtccgtgttcatgctatggaagcagtaatggcatgctgggaacttgaacaaaaccttcagagtttgacaggtgcctcgcccggtgaaggcacgggagcaaccatgtcagacggtgaagatgatcaggcagatagcgaggcaaacatgtatgatccaagcttggatggagcggataacatgggtttcggccttcccacagaaagcgagcgatccctaatggagcgtgtccgtcaagagctaaagcatgaactaaagcagggttacaaagagaagctgattgacataagagaagaaattcttcgcaagcgaagagcgggaaagctaccgggagacacgacttctacgttaaaagcttggtggcagtctcatgcaaagtggccatatccaacagaggaagacaaggcacggctagtccaagaaacagggctacagctaaagcagatcaacaactggttcatcaaccaaaggaaaagaaactggcacagtaacccatcttcctccaccagcgtcaaaaccaaacgcaagaggtgataacaattcgtagcagatgatcgccgagggctgaacactatgctgggttacagggcaggaggaattcatccaaagcaataggaggacaattgcttagatcaggaaatgttctgcaagatcaggatcaggagccgtatattagagaaccagttatattttatagacaaaactaattgcaagtaaacatatatagttctgtaagcgcttgatttgaagaaaaggggaaatttttccaaaggggttgtataaaatggcgaaatttatatttcagtttctagataccactgggtaatactgctcatagcactggtgttgatgtttttgttctccatgcgtcgtagacaagcggttgaaccgtccgcttcagacgatttttttcacacgtatatatgtatgtattgctgtgggtttatttagctt
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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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