2024-09-29 12:24:37, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001401963 2036 bp mRNA linear PLN 02-JUN-2024 DEFINITION Oryza sativa Japonica Group homeobox-leucine zipper protein HOX16-like (LOC4330610), transcript variant 1, mRNA. ACCESSION NM_001401963 XM_015770767 VERSION NM_001401963.1 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 2036) 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 2036) 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 CI299509.1, CB655904.1, AU173287.1, AY559045.1, AK058364.1 and CI131573.1. On Mar 3, 2022 this sequence version replaced XM_015770767.2. ##Evidence-Data-START## Transcript exon combination :: AK119592.1, AY559045.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMD00008650, SAMD00020310 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-315 CI299509.1 1-315 316-501 CB655904.1 296-481 502-834 AU173287.1 93-425 835-1272 AY559045.1 426-863 1273-1536 AK058364.1 778-1041 1537-2036 CI131573.1 1-500 FEATURES Location/Qualifiers source 1..2036 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="2" /map="2" gene 1..2036 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /note="homeobox-leucine zipper protein HOX16-like" /db_xref="GeneID:4330610" exon 1..655 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /inference="alignment:Splign:2.1.0" misc_feature 532..534 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /note="upstream in-frame stop codon" CDS 541..1572 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /note="isoform 1 is encoded by transcript variant 1; putative homeodomain leucine zipper protein; OSJNBa0072H09.24; LOC_Os02g49700; HD-ZIP protein HOX16; homeodomain leucine zipper protein 16; Homeodomain transcription factor HOX16; homeobox-leucine zipper protein HOX16" /codon_start=1 /product="homeobox-leucine zipper protein HOX16 isoform 1" /protein_id="NP_001388892.1" /db_xref="GeneID:4330610" /translation="
MESGRLIFSTAGSGAGQMLFLDCGAGGGGVGGGAMFHRGARPVLGMEEGGRGVKRPFFTTPDELLEEEYYDEQLPEKKRRLTPEQVHLLERSFEEENKLEPERKTELARKLGLQPRQVAVWFQNRRARWKTKQLERDFDRLKASFDALRADHDALLQDNHRLHSQVMSLTEKLQEKETTTEGSAGAAVDVPGLPAAADVKVAVPDAEEPALEEAAAAFEEQQEQQVKAEDRLSTGSGGSAVVDTDAQLVVGCGRQHLAAVDSSVESYFPGGDEYHDCVMGPMDHAAGGIQSEEDDGAGSDEGCSYYADDAGVLFADHGHHHHHQHADDDEEDGQQISCWWMWN"
misc_feature 769..930 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /note="Region: Homeodomain; pfam00046" /db_xref="CDD:459649" misc_feature 934..1068 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /note="propagated from UniProtKB/Swiss-Prot (Q6YWR4.1); Region: Leucine-zipper" misc_feature 934..1059 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /note="Homeobox associated leucine zipper; Region: HALZ; pfam02183" /db_xref="CDD:460477" misc_feature 1192..1257 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /note="propagated from UniProtKB/Swiss-Prot (Q6YWR4.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" exon 656..795 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /inference="alignment:Splign:2.1.0" exon 796..1035 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /inference="alignment:Splign:2.1.0" exon 1036..2031 /gene="LOC4330610" /gene_synonym="Hox16; OsHox16; OsJ_007974; P0617A09.3" /inference="alignment:Splign:2.1.0" ORIGIN
tagcttcagagccctccaaaagaaaaaaatattataggaaataaaaaataatttcctggttagaataaacacatttttaaaaaaaccaagaaaagattttcctcttctgttacattccttcttccttctccggccaccggagccgtagccgaattgtgcctcttctccggcgaggggagagggagagagggggtgtgagttttgctccttccggcgagtggtctcctccccgcgcggctgaggagatctctcgggacatcggggttggggcggcgtgcatgatggggttctcgctcacgccgatgaagatctccacgaggcttctgtggagcaccagcttcttccgccacaagatcgccgccaccatcgcgtcctcctcctccttcttataagatcatcttctccgccacagcaatctgtaaatatatacacatcgaacgcgacaagcgcgtttgattgattggatttttctcccctctcctcacgacaagtaattaaggcgcgcgatctcgatctctagcgttgagaacttgatccgcgatggagtccggccggctcatcttcagcacggcgggctccggcgccgggcagatgctcttcttggactgcggcgctggcggcggcggcgtcggcggcggggccatgttccatcgaggggcgagaccggtgctcggcatggaggaaggagggcgcggcgtcaagcggcccttcttcaccacccccgacgagctcctcgaagaggagtactacgacgagcagctcccggagaagaagcggcgcctcacgccggagcaggtgcatctgctggagaggagcttcgaggaggagaacaagctggagccggagcggaagacggagctggcgcggaagctagggctgcagccgcggcaggtcgccgtgtggttccagaaccgccgcgcgcgctggaagaccaagcagctcgagcgcgacttcgaccgcctcaaggcgtcgttcgacgccctccgcgccgaccacgacgccctcctccaggacaaccaccgcctccactctcaggtcatgtcgttgaccgagaagctgcaagagaaggagacgacgaccgagggcagcgccggcgcggccgttgacgtcccgggcttgcctgcggcggccgacgtgaaggtcgccgtcccggacgccgaggaaccggcgctggaggaggcggcggcggcgttcgaggagcagcaggagcagcaggtgaaggccgaggacaggctgagcacgggcagcggcgggagcgcggtggtggacacggacgcgcaactggtggtcgggtgcggccggcagcatctcgccgccgtggacagcagcgtggagtcgtacttcccgggcggcgacgagtaccacgactgcgtgatgggccccatggaccacgccgcggggggcatccagtcggaggaggacgacggcgccggcagcgacgagggctgcagctactacgccgacgacgccggcgtcctcttcgccgaccacggccaccaccaccaccaccaacacgcggacgacgacgaggaggacggccagcagatcagctgctggtggatgtggaactagatttctcgcgcgcgcgcgtcgtcgtgcattcaattctcgtgttaaaaaaatcgttctctttttcatttttccgcttctttgtctgtaatgttgagtttcgatcggctatgagaaggaaggaggtgtatgcatgtgcatggtatggtagggtaacacatcggtgaatcaaatctgtcatggtgatgtacgagaattgaagaacatgggggtagcaataagtgcatggaggcaagtactcttttcaatggcacataccaaatcatgtcgtcgaattgagatttttattagtcttgaattcttcttgaacatgtcgtctctgattactgtagcatatatggtggttgatgattgacgtactccgcctccggttgaactgtagtgtgactagggagagccgagaggcgatcatcctcgtttaaatcaaaaagtttctgaagcttgaattttaagctggatgcaaaaaa
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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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