LOCUS       XM_009304649            2814 bp    mRNA    linear   VRT 08-SEP-2024
DEFINITION  PREDICTED: Danio rerio pbx/knotted 1 homeobox 1.1 (pknox1.1),
            transcript variant X1, mRNA.
ACCESSION   XM_009304649
VERSION     XM_009304649.4
DBLINK      BioProject: PRJNA13922
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_007120.7) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Sep 8, 2024 this sequence version replaced XM_009304649.3.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: GCF_000002035.6-RS_2024_08
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.3
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 08/15/2024
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2814
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="9"
     gene            1..2814
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /note="pbx/knotted 1 homeobox 1.1; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 16
                     ESTs, 95 long SRA reads, 5 Proteins, and 100% coverage of
                     the annotated genomic feature by RNAseq alignments,
                     including 15 samples with support for all annotated
                     introns"
                     /db_xref="GeneID:798151"
                     /db_xref="ZFIN:ZDB-GENE-020122-5"
     misc_feature    1
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /experiment="COORDINATES: cap analysis [ECO:0007248]"
                     /note="transcription start site"
     CDS             430..1731
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /codon_start=1
                     /product="homeobox protein PKNOX1.1 isoform X1"
                     /protein_id="XP_009302924.1"
                     /db_xref="GeneID:798151"
                     /db_xref="ZFIN:ZDB-GENE-020122-5"
                     /translation="

MMAAQSVSIDKYPEGDQQMQVMEQSENDLKKGFSNGNTGNTSSPVSNEPQTQMDIDKACIYRHPLFPLLALLFEKCEQSTLGSDCVTSASFDVDIENFVRSQEKDGKAFFSEDPDLDNLMVKAIQVLRIHLLELEKVSDLCKDFCSRYISCLKAKMNSETLLSGDPGSPYSPVHDQLSNPFSGPLSPQSLLIPSSGLQQGSVTVTTVNSSQVATGNTVYQPVTVVTPQGQVVTQAISPGALHIQNSQLQLQLNQDLSFFGGDDSSPKNKRGVLPKQATNVMRSWLFQHIAHPYPTEEEKKQIATQTNLTLLQVNNWFINARRRILQPMLDANSTEASKSKKKVAQSRPLHRFWSDSIASTGSQQQLTMPDGSLVTVGMNVDGFQALSSDGATLAMQQVLMGNHSEDETDESGNEDDTDMSTANMPGLGLDVSD"

     misc_feature    673..930
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /note="N-terminal of Homeobox Meis and PKNOX1; Region:
                     Meis_PKNOX_N; pfam16493"
                     /db_xref="CDD:465140"
     misc_feature    order(1228..1242,1246..1248,1306..1308,1324..1326,
                     1363..1365,1369..1374,1381..1386,1390..1398)
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(1234..1236,1243..1245,1372..1374,1381..1386,
                     1393..1395)
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1282..1398
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     polyA_site      2814
                     /gene="pknox1.1"
                     /gene_synonym="fc13f10; prep1; prep1.1; wu:fc13f10"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

agtgtgacgaagattggcacccaggtaagctgtcactcaaactcgtctttttccgttccctatcaatcaaacaatccgagcaacacacaaaaatgcccggggctgagtgaaagagagcatacggtgttagggctcgtgggagttgcatgggacagtcgagccaatcttaacctggatatgtttatcttggagaaaaaatgtctgctttattgagggacaggaggtttcagtctggcaagggcgagcgctgagtgaaggcccgggtttagcggctctccgcgtcccactgcccctgctctctctgtcaggccggaggagcgcgagccagcctccccggctagattaacggattcactgtatattttaatcaagtcctctcctgctgcctgtccatataatgtcccagtgttggcagtggccattttgaatatgatggctgcccagtctgtgtccatagacaaatacccagagggagaccagcagatgcaggtaatggagcagtcagagaatgaccttaaaaagggcttttccaatggaaacacaggaaacacaagcagccctgtatccaatgaaccacaaacacaaatggatatcgacaaagcctgtatatatagacatcctcttttccctctcctggctctcctgtttgagaagtgcgaacagtccactctggggtccgactgtgtcacgtctgccagtttcgatgttgacattgagaactttgtacgcagtcaagagaaagacggcaaagccttctttagtgaagaccctgacctcgacaacttgatggtcaaggccatccaggtgctgaggattcatctgttagagctggagaaagtcagtgacctgtgcaaggatttctgcagccgttatatttcatgccttaaggccaagatgaacagcgagacactgctgagtggagatccaggcagcccgtactctccggtccatgaccagttgtccaaccctttctcaggtcccctcagtccccagagtcttctgataccttcgtctggtcttcaacaaggcagtgttacagtgaccacagtcaattcatcacaagtggccacaggtaacaccgtatatcagccagtgacagtggtcacaccacagggacaagtggtgacacaggccatctcacctggagcactacacatccagaactcacagctccaacttcagctcaatcaggacttgagtttcttcgggggagacgacagctcacctaaaaacaaacgtggcgttcttcccaaacaggcaaccaatgtcatgcgctcctggctctttcagcacattgcgcacccgtatcccactgaggaagagaaaaagcaaattgcaactcaaacaaacctgactttacttcaagtcaacaactggtttattaatgctcgaagacgaatactgcagccaatgctggatgccaactcaacagaggcatctaaaagcaagaaaaaggtggctcagagtcgcccgctgcaccgcttctggtccgactccatcgcctctacaggaagccagcagcagctcacaatgccagacgggagtttggttactgtgggaatgaatgttgacggcttccaggcgctttcttcagatggagccactctcgccatgcagcaggtcttgatgggaaatcacagcgaggatgagactgatgaaagcggcaatgaagacgacacagatatgtcaaccgccaacatgcccggtctgggtttagacgtcagcgactaagacgcatggattgcaggtcacacactgcatgcttacatttacattggaaaacttgcagatgatgcttgttgcaagagatccgctccctatgtagattttcagcaaagctgatacttgtgcactacaaaaagaattaagtactgtatgttgacctttatgttacacaaaacacaagtgaacagtttacagagagcacaacgttactgaaagcagcaaaccgaggagtgtcatttttaccacaaagaggtttgtgcacttttatacagatacacttggagaagactgcagaaatggaggacggaggaaccttttgaaactcctttagtgaatgtttggtcaattttgttttctgtattaactcatttggatgccaagagtgtgtcgtcgtgctggttttattcccactgcatgtttgtgttctcttcagtatgctcacgcttgtagagactccaagacggagtttgagaaaagagattatttttatatataaacgttgtataaaagtgttgtttttcttttgctgttttttttagtgttttatagggaatatttatgtacagaaacgatactatctgccctgttttcaggggatgagtttttcttcttgtttttagaaaaacaaacaaaaaaaagatcttggagttaaaccattgtttcaatttgtgaattggttttaacactcgcgtacaaaatgccttacacgtccttttgtaaaactcttttgctgataagcacagaaatccggatgcattgatgaaattgagtaatatctgttcaagtctcttccagtaatctttccttcgtttcagagggatctctgtttttgctctgtaggctgatgtagtttgatctcacatgtgcaaagcttatcaatcagattcatgaaagaagctttggaaatgaaaatggcataaaatgtccattattgaagtcaaataaaggtcaagtctgaatattttgccactctgtttttacatttaatgttgttaattgtgtgttgttgtttttaagcaattatttaaggactgttaacactaaaatagtttaatattaaagcttgaccaagttttgcgactggaaaaa

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