2024-09-29 10:20:51, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001398034 1392 bp mRNA linear PLN 07-DEC-2021 DEFINITION Oryza sativa Japonica Group homeobox-leucine zipper protein HOX3 (LOC4326566), mRNA. ACCESSION NM_001398034 XM_015790075 VERSION NM_001398034.1 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. COMMENT INFERRED REFSEQ: This record is predicted by genome sequence analysis and is not yet supported by experimental evidence. The reference sequence was derived from AP014957.1. On Dec 7, 2021 this sequence version replaced XM_015790075.2. Sequence Note: The RefSeq transcript and protein were derived from genomic sequence to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on alignments. ##Evidence-Data-START## RNAseq introns :: single sample supports all introns SAMN07627064, SAMN07627077 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## inferred exon combination :: based on alignments, homology ##RefSeq-Attributes-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-379 AP014957.1 25883577-25883955 c 380-612 AP014957.1 25883056-25883288 c 613-692 AP014957.1 25882035-25882114 c 693-1392 AP014957.1 25880204-25880903 c FEATURES Location/Qualifiers source 1..1392 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="1" /map="1" gene 1..1392 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="homeobox-leucine zipper protein HOX3" /db_xref="GeneID:4326566" exon 1..379 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /inference="alignment:Splign:2.1.0" misc_feature 196..198 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="upstream in-frame stop codon" CDS 307..996 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="HD-ZIP protein HOX3; Homeodomain transcription factor HOX3; LOC_Os01g45570" /codon_start=1 /product="homeobox-leucine zipper protein HOX3" /protein_id="NP_001384963.1" /db_xref="GeneID:4326566" /translation="
MMGATSPSGLELTMAVPGLSSSGSEGAGCNNNNAGGGCNMRDLDINQPASGGEEEEFPMGSVEEDEEERGVGGPHRPKKLRLSKEQSRLLEESFRLNHTLTPKQKEALAIKLKLRPRQVEVWFQNRRARTKLKQTEMECEYLKRCFGSLTEENRRLQREVEELRAMRVAPPTVLSPHTRQPLPASALTMCPRCERITAATGPPAVRPPPSSAAAAAPSPFHPRRPSAAF"
misc_feature 307..552 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="propagated from UniProtKB/Swiss-Prot (Q0JKX1.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" misc_feature order(532..546,550..552,601..603,619..621,658..660, 664..669,676..681,685..693,697..702) /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature 532..699 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="Homeodomain; Region: HOX; smart00389" /db_xref="CDD:197696" misc_feature order(538..540,547..549,667..669,676..681,688..690) /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" misc_feature 703..837 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="propagated from UniProtKB/Swiss-Prot (Q0JKX1.1); Region: Leucine-zipper" misc_feature 703..834 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="homeobox associated leucin zipper; Region: HALZ; smart00340" /db_xref="CDD:128634" misc_feature 898..993 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /note="propagated from UniProtKB/Swiss-Prot (Q0JKX1.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" exon 380..612 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /inference="alignment:Splign:2.1.0" exon 613..692 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /inference="alignment:Splign:2.1.0" exon 693..1392 /gene="LOC4326566" /gene_synonym="HOX3; OsHox3; OsJ_002698" /inference="alignment:Splign:2.1.0" ORIGIN
tgacagtgggaccatatgctaatagtatagtaagcaactattgtataaattgactattaaattggctatagataaattggagctagtagttggctatactgttaaccttgctctaaaggggcactgccactgttaaaagttctaacgtgtccatgcctctaccctggcagcctcgccctggaaacgccccttatataacgcctccccaggcttctactccttttcaacctgtctttgtctccctccgcctttgccccgccttccctgcccttttctcttgctgagccgcttctgcattggcttgtgatgatgggggccacttctccgtcaggcctggagctcaccatggctgtccccggcctcagctcctctggttcagaaggggccggttgcaacaacaacaacgccggtggcggctgcaacatgagggacctggacatcaaccagccggcgagcggcggcgaggaggaggagttcccgatgggcagcgtggaggaggacgaggaggagaggggcgtcggtgggccccaccgccccaagaagctccgcctctccaaggagcagtcccgcctcctcgaggagagcttccgcctcaaccataccctcacgccgaagcaaaaggaggccttggcgatcaaactgaagctgcggccgaggcaggtggaggtctggtttcagaaccgtagggcaaggacgaagctgaagcagacggagatggagtgcgagtacctgaagcgctgcttcgggtcgctgacggaggagaaccgccggctgcagcgggaggtggaggagctgcgggcgatgcgggtggccccgcccacggtgctctcgccgcacaccaggcagccgctcccggcgtccgcgctcaccatgtgcccccgctgcgagcgcatcaccgccgccaccggcccgcctgccgtgcgcccgccgccgtcgtcagccgccgccgccgccccctcgcccttccaccctcgccgcccctctgcggccttctaggcccaaggtctcgcatcctaaaggccacaaaaagatgggcctcgccgtcccgtgtaaattgaaggagacgacgcagcggtagagggccccgtgttggcgttgttgcgttgggtccagtcgtctcagaggagtcagaggcgtggacaaaatgtttgttgcattgtttgtgttccattggtcgttgatcttagcttgatgatctgtgattcgcgccttgctcgtctaggtttctcttgggccgacgcatgatcttttttccccgtgtcggaccgtattgggccttttgagatcgacgggccccctccttgtttcgcatgtggacatgttatttcgtccttttgggccaacaattcagcacggtggccaacggtgcgtagttcgtcgtcgttttctttc
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This page is licensed under a
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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