2024-05-04 22:38:57, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001421692 1272 bp mRNA linear PLN 29-MAY-2023 DEFINITION Oryza sativa Japonica Group MADS-box transcription factor 30-like (LOC4341786), transcript variant 1, mRNA. ACCESSION NM_001421692 VERSION NM_001421692.1 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 1272) AUTHORS Schilling S, Gramzow L, Lobbes D, Kirbis A, Weilandt L, Hoffmeier A, Junker A, Weigelt-Fischer K, Klukas C, Wu F, Meng Z, Altmann T and Theissen G. TITLE Non-canonical structure, function and phylogeny of the Bsister MADS-box gene OsMADS30 of rice (Oryza sativa) JOURNAL Plant J 84 (6), 1059-1072 (2015) PUBMED 26473514 REMARK GeneRIF: It was concluded that sequence deviations that accumulated led to MADS30 and the alteration of the C-terminal domain might have been a precondition for a potential neo-functionalization of OsMADS30 in O. sativa. REFERENCE 2 (bases 1 to 1272) AUTHORS Lee S, Kim J, Son JS, Nam J, Jeong DH, Lee K, Jang S, Yoo J, Lee J, Lee DY, Kang HG and An G. TITLE Systematic reverse genetic screening of T-DNA tagged genes in rice for functional genomic analyses: MADS-box genes as a test case JOURNAL Plant Cell Physiol 44 (12), 1403-1411 (2003) PUBMED 14701936 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from AP014962.1, CF322128.1, AY174093.1, CI138112.1 and CI259303.1. ##Evidence-Data-START## CDS exon combination :: AY174093.1 [ECO:0000331] RNAseq introns :: single sample supports all introns SAMN07124405 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-174 AP014962.1 27637542-27637715 175-226 CF322128.1 182-233 227-229 AP014962.1 27637854-27637856 230-810 AY174093.1 10-590 811-1205 CI138112.1 291-685 1206-1272 CI259303.1 635-701 FEATURES Location/Qualifiers source 1..1272 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="6" /map="6" gene 1..1272 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="MADS-box transcription factor 30-like" /db_xref="GeneID:4341786" exon 1..201 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" misc_feature 170..172 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="upstream in-frame stop codon" exon 202..408 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" CDS 221..886 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="P0637D03.37; Os06g0667266; LOC_Os06g45650" /codon_start=1 /product="MADS-box transcription factor 30" /protein_id="NP_001408621.1" /db_xref="GeneID:4341786" /translation="
MGQGKIEMKRIEDATRRQVTFSKRRAGFLKKANELAVLCDAQVGVVVFSDKGKLFDFCSPPVILMELFHRYEITTRNTRLQETNRDDEQMVMEITRLRNEIDQLEASLRRQTGEDLSSVSTVDELSQLQLQLESSLSKVHARKDELMSQQLEDMRRMHQTVHEQNNFLCRMVTKILLLNVITIMILAAMISITHARIALDDCMQLGYIVIKQENSWRFWFI"
misc_feature 224..436 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I...; Region: MADS_MEF2_like; cd00265" /db_xref="CDD:238165" misc_feature order(224..232,236..238,242..244,257..259,263..265, 275..280,287..292,296..301,308..313,317..322,332..334) /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238165" misc_feature order(281..283,302..307,314..319,323..328,335..337, 350..352,356..358,362..364,380..382,386..388,404..406, 419..424,431..433) /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238165" misc_feature 395..397 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="putative phosphorylation site [posttranslational modification]; other site" /db_xref="CDD:238165" misc_feature 482..736 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /note="K-box region; Region: K-box; pfam01486" /db_xref="CDD:426286" exon 409..484 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" exon 485..649 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" exon 650..691 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" exon 692..754 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" exon 755..845 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" exon 846..1272 /gene="LOC4341786" /gene_synonym="MADS30; OsMADS30" /inference="alignment:Splign:2.1.0" ORIGIN
gctcctctccttcagctcgaaggaagccgttccagtgtctcacaagccaaggtaaagaaaaaaaagagagagaaaaaaacagagaaggaaatcaagagaagaacaccatttgattctcctctctgctcactccttctccttcttctgtttgtccgtcttggattggagctagcacttctttgactgcccttgttcatcgaggcggcgaggcgaggtcgcgatggggcaagggaagatcgagatgaagaggatcgaggacgcgacgaggcggcaggtgacgttcagcaagcgcagggctgggtttctcaagaaggcgaacgagctcgccgtgctgtgcgatgcgcaggtcggcgtcgtcgtcttctccgacaagggcaagctcttcgacttctgcagcccgccggtcatcttgatggagctgtttcaccgttatgagatcaccaccagaaacactcggcttcaggagacaaaccgtgatgatgagcaaatggtcatggagatcacaaggctaaggaatgagatcgaccagctcgaagccagtttaaggaggcaaactggagaagacctgtcatctgtgtccacagtggatgagctcagccagctgcagctgcagcttgaatcatctctcagcaaagttcatgcgaggaaggatgagctcatgagccagcagctggaggatatgcgtcgcatgcatcagaccgtgcatgagcagaacaatttcttgtgccgcatggtaactaaaatactcctactaaatgtgatcacaataatgatacttgctgccatgatttctatcactcatgcacgcattgcccttgatgattgtatgcagttgggatatattgtcatcaagcaagaaaattcttggcgattctggtttatatgacttcctggaagcagtaggaacaacaagagttactgaaccagaaattgaacttgccttcttcatgcatcagatgaaccataaagggaacaacactactaccctctccaaaattgagctgctcaggacttcgtagaaatttacagcttcaggacatgtgatttatccattctcttttactgtttattctaaaatgcaaaaaaaaaagaaattttgttgtagcttagattaaggcagcctcagctttgtggtttgccaagccatgtactgatatatgaatgtgatactttaattaatgttgaaacgcatgattatgtatttgaactgaattgactgaatgtgtcctggaatcggtttagaacttaatatatcaatcagacttttgttct
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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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