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2024-03-29 10:31:00, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_002119663            1195 bp    mRNA    linear   INV 22-OCT-2018
DEFINITION  PREDICTED: Ciona intestinalis homeobox protein OTX1 (LOC778736),
            mRNA.
ACCESSION   XM_002119663
VERSION     XM_002119663.3
DBLINK      BioProject: PRJNA187185
KEYWORDS    RefSeq.
SOURCE      Ciona intestinalis (vase tunicate)
  ORGANISM  Ciona intestinalis
            Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia;
            Cionidae; Ciona.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_020176.2) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Oct 22, 2018 this sequence version replaced XM_002119663.2.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Name             :: Ciona intestinalis Annotation
                                           Release 104
            Annotation Version          :: 104
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 8.1
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..1195
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
                     /chromosome="11"
     gene            1..1195
                     /gene="LOC778736"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 2 mRNAs, 4 ESTs, 8 Proteins, and
                     100% coverage of the annotated genomic feature by RNAseq
                     alignments, including 26 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:778736"
     CDS             112..975
                     /gene="LOC778736"
                     /codon_start=1
                     /product="homeobox protein OTX1"
                     /protein_id="XP_002119699.2"
                     /db_xref="GeneID:778736"
                     /translation="
MNPMTSRPEVNAGSSEGHPLFVNSNCGIKFPFPFGGTGRRRNRTSFSQHQLFILESAFQITQYPDIFYRDALASRTLLTEARIQVWFQNRRAKYRKQRRKLISENETETEGSKTFVSPETRSACVSLPHRTNLPEIEAPSKQMSSESILALNQIYSQYAVGVGGHTSSQVMQESSTPHACFTNPAVGGLMNAMHHRHLTLLKSNKSHSNVVSELASIAAMRHWDEPNDTHPALMPYAQHFNTYSQCEKEFPRSRPNSPRTETHGSGELRNREDGSDSRKSSDESDLE"
     misc_feature    order(229..243,247..249,298..300,316..318,355..357,
                     361..366,373..378,382..390,394..399)
                     /gene="LOC778736"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(235..237,244..246,364..366,373..378,385..387)
                     /gene="LOC778736"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    238..396
                     /gene="LOC778736"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
ORIGIN      
taattattattaaaatctcgaagaaaactgctttggcaaaaaagttttcacgtcaggtatatataaaactctgtctttcgttcattggtttagaatacatttacgtcatacatgaatccaatgacgtcaagacctgaagttaacgctgggagctcggaaggacatccgttgtttgtcaactcaaactgcgggataaagttccctttcccctttggcggaacaggacgaagacgaaacagaacaagtttttctcagcatcaactatttattcttgagagcgccttccagattactcaatatcccgacatcttctaccgagatgccctggcgtcacggactctgctcaccgaagcacgtattcaggtttggtttcaaaatcgaagggcgaaatatcgcaaacaacgaaggaaactaatttctgaaaatgagacggaaaccgaaggaagtaagacgtttgtttcgccagaaacaagatcagcatgcgtatctttacctcaccgtacaaatttgccagaaatagaagcacctagcaaacaaatgtcatctgaatctattctcgccttgaaccagatatacagtcagtacgctgtaggtgtgggcggtcataccagctctcaagtaatgcaagaaagttcgacaccgcatgcctgcttcacaaacccagcagtaggcggtttaatgaacgcgatgcatcatcgccacttaactcttctgaaaagcaataaatctcactcaaacgtagtttctgagttggcaagcatcgcagcaatgcgacattgggatgagccaaatgatacccacccagcactcatgccctatgctcaacacttcaacacatactctcaatgtgaaaaggaatttccacggtcaaggccaaacagtcccagaacagaaacacacggatccggagaattgcgaaaccgcgaagacggttcggattctagaaagagctcggacgaaagcgatctggaataaaagctggtcacatttgtttaactttaaatcgatatgaacatggggctgtaggctacactgtagcgtgtatatatattcagtaaacaaacagatatgtgatattttgcactattaagcgaattgtattcaatacttgttgcatcaaagttgtccacgcttctaacatgtcagttgattactggtatactttttaaataatacaaaggcattttttcgaaaa
//

by @meso_cacase at DBCLS
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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. [Full Text]