2024-09-29 10:32:20, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001409362 1543 bp mRNA linear PLN 12-JUN-2024 DEFINITION Oryza sativa Japonica Group homeobox protein knotted-1-like 2 (LOC4328520), transcript variant 1, mRNA. ACCESSION NM_001409362 XM_015770751 VERSION NM_001409362.1 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 1543) 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 1543) 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 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from CF569139.1, CI304983.1, AK243352.1, CB667102.1 and CI424644.1. On Jul 15, 2022 this sequence version replaced XM_015770751.2. ##Evidence-Data-START## Transcript exon combination :: AK243352.1, AB061817.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMD00008650, SAMD00020310 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-105 CF569139.1 9-113 106-319 CI304983.1 78-291 320-626 AK243352.1 324-630 627-1310 CB667102.1 182-865 c 1311-1543 CI424644.1 179-411 FEATURES Location/Qualifiers source 1..1543 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="2" /map="2" gene 1..1543 /gene="LOC4328520" /gene_synonym="HOS58" /note="homeobox protein knotted-1-like 2" /db_xref="GeneID:4328520" exon 1..466 /gene="LOC4328520" /gene_synonym="HOS58" /inference="alignment:Splign:2.1.0" CDS 143..1084 /gene="LOC4328520" /gene_synonym="HOS58" /note="isoform 1 is encoded by transcript variant 1; KNOX family class 2 homeodomain protein; Homeobox protein HOS58; LOC_Os02g08544" /codon_start=1 /product="homeobox protein knotted-1-like 2 isoform 1" /protein_id="NP_001396291.1" /db_xref="GeneID:4328520" /translation="
MAFHYPDHGLAMDPSSAAASSPNPSFSPGGGGGGGVGGGEREKAAVAAHPLYERLLEAHVACLRVATPVDQLPRIDAQIAARPPPLAAASAAAAAGGPSGGEELDLFMTHYVLLLCSFKEQLQQHVRVHAMEAVMGCWELEQSLQSLTGASPGEGTGATMSDDEDNQVDSEANMFDGNDGSDGMGFGPLMLTEGERSLVERVRHELKNELKQGYKEKLVDIREEILRKRRAGKLPGDTASILKAWWQAHSKWPYPTEDDKARLVQETGLQLKQINNWFINQRKRNWHSNPASSGEKTKKKRNVTGDGGAEQSW"
misc_feature 179..262 /gene="LOC4328520" /gene_synonym="HOS58" /note="propagated from UniProtKB/Swiss-Prot (Q0E3C3.2); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" misc_feature 269..376 /gene="LOC4328520" /gene_synonym="HOS58" /note="KNOX1 domain; Region: KNOX1; pfam03790" /db_xref="CDD:461051" misc_feature 449..586 /gene="LOC4328520" /gene_synonym="HOS58" /note="KNOX2 domain; Region: KNOX2; pfam03791" /db_xref="CDD:427506" misc_feature 755..820 /gene="LOC4328520" /gene_synonym="HOS58" /note="ELK domain; Region: ELK; pfam03789" /db_xref="CDD:427504" misc_feature order(824..838,842..844,902..904,920..922,959..961, 965..970,977..982,986..994,998..1003) /gene="LOC4328520" /gene_synonym="HOS58" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature order(830..832,839..841,968..970,977..982,989..991) /gene="LOC4328520" /gene_synonym="HOS58" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" misc_feature 878..994 /gene="LOC4328520" /gene_synonym="HOS58" /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920" /db_xref="CDD:428673" misc_feature 986..1081 /gene="LOC4328520" /gene_synonym="HOS58" /note="propagated from UniProtKB/Swiss-Prot (Q0E3C3.2); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" exon 467..587 /gene="LOC4328520" /gene_synonym="HOS58" /inference="alignment:Splign:2.1.0" exon 588..778 /gene="LOC4328520" /gene_synonym="HOS58" /inference="alignment:Splign:2.1.0" exon 779..910 /gene="LOC4328520" /gene_synonym="HOS58" /inference="alignment:Splign:2.1.0" exon 911..1044 /gene="LOC4328520" /gene_synonym="HOS58" /inference="alignment:Splign:2.1.0" exon 1045..1543 /gene="LOC4328520" /gene_synonym="HOS58" /inference="alignment:Splign:2.1.0" ORIGIN
gtcatccgctcttcttcccctcttccccactcgcaccaaccccaacccccccaaccgccgccgccgccgccgacgacccaccggtcgccgcgtcgccggagtcgcgtactggagaggggggcggagaggcaccagccgccccatggcgttccactacccggaccacggcctcgccatggacccgtcctccgccgcggcgtcgtcgcccaaccctagcttctcccccggaggcgggggcgggggcggggtcgggggaggggagagggagaaggcggccgtcgcggcgcacccgctctacgagcgcctgctcgaggcgcacgtcgcctgcctccgcgtcgccacccccgtggaccagctcccccgcatcgacgcgcagatcgccgcgcgcccgcctcccctcgcagccgcctccgccgccgccgccgccggtggcccctccggtggcgaggagctcgacctcttcatgacacattatgtgttgcttctttgctcattcaaggaacaacttcagcagcatgtgcgtgttcatgcaatggaagcagtgatggggtgctgggaacttgaacagtctttacaaagtctaacaggggcatctcctggtgaagggactggagcgactatgtctgatgatgaagataaccaagtggacagtgaagccaacatgtttgatggaaatgatgggtcagacggcatgggctttggtcccttaatgctgaccgagggtgaaagatccttggttgagcgtgtacggcatgagctgaagaacgagcttaagcaggggtacaaagaaaagcttgtggatattagggaagagatccttcgcaagcggagagctggtaaacttcctggtgatactgcatctatactaaaagcttggtggcaagctcattctaagtggccatacccaactgaagacgacaaggcccgcctggtgcaggaaacggggttacaactgaagcaaatcaacaattggttcattaaccaacgcaaacgaaactggcatagcaacccagcatcctctggtgaaaagaccaagaagaaaagaaacgttacaggtgatggtggtgctgagcaatcgtggtagattggttcaacatgaaactagatgtaaacagtaccttttattgtgaagagtgtagtacattctctcgtgctctggtgtgacaaaatctggagaccggcccattcacaagggaattgcgatcataggcgtaatcactgggcaaagaagtcatctgaaattgtagcataagcgcacaaaactgaggtgggtggtatttgactttcgcagtatagcatcgactgtctgctaatgtgattttgtgaaggaatgttctgtataaccgatgaacggaaggaagaattgtattgtgtatgtaattgtgtatcttatttatcatgtaatatatatatgatattaggagctttaagattcggattggatatgttctctgttttgatgcacgatgcagtgttgaggtgtaacatgttttggtaattcactgtgtataaaatatcggagtatatgtgcgtaagcttttct
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@meso_cacase at
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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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