LOCUS       XM_078467954            5214 bp    mRNA    linear   INV 06-JAN-2026
DEFINITION  PREDICTED: Crassostrea virginica copper-transporting ATPase 1-like
            (LOC111122539), transcript variant X2, mRNA.
ACCESSION   XM_078467954
VERSION     XM_078467954.1
DBLINK      BioProject: PRJNA1395139
KEYWORDS    RefSeq.
SOURCE      Crassostrea virginica (eastern oyster)
  ORGANISM  Crassostrea virginica
            Eukaryota; Metazoa; Spiralia; Lophotrochozoa; Mollusca; Bivalvia;
            Autobranchia; Pteriomorphia; Ostreida; Ostreoidea; Ostreidae;
            Crassostrea.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_136048) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: GCF_053477285.1-RS_2025_12
            Annotation Pipeline         :: NCBI Eukaryotic Genome Annotation
                                           Pipeline (EGAP)
            Annotation Software Version :: 10.5
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 12/30/2025
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..5214
                     /organism="Crassostrea virginica"
                     /mol_type="mRNA"
                     /isolate="SEPT_11B"
                     /isolation_source="whole tissue of the animal"
                     /db_xref="taxon:6565"
                     /chromosome="2"
                     /tissue_type="Pooled whole tissue"
                     /dev_stage="adult"
                     /geo_loc_name="USA: NY, long island sound"
                     /collection_date="2024-10"
                     /collected_by="Josephine Hoh"
     gene            1..5214
                     /gene="LOC111122539"
                     /note="copper-transporting ATPase 1-like; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 1 EST, 3 Proteins, and 100% coverage of the annotated
                     genomic feature by RNAseq alignments, including 77 samples
                     with support for all annotated introns"
                     /db_xref="GeneID:111122539"
     CDS             107..4402
                     /gene="LOC111122539"
                     /codon_start=1
                     /product="copper-transporting ATPase 1-like isoform X2"
                     /protein_id="XP_078324080.1"
                     /db_xref="GeneID:111122539"
                     /translation="

MAGQGKYMKLPMFLEEKEAKITYSPTETSPPILAEQISDMGFPSKVKLVHPVRGDNCQDAIINVGGMTCQSCVKSIESKMLEVSGILGITVSLLKKQAYVQFNPGKISAESIASAIDDMGFEASVHSITRDKGLTTKIGVEGMTCQSCVNSIESAMRGKPGVREIKVSLSDKEAYIVYDPTLTSPGSLRDQIDDMGFEATLARESSIESEFDRLASRQSSTRSVQSELVCQIAVKGMTCQSCVKNIESNISPKPGVMSISVSLEKEMASVTYNPLVTNPTSIAGMIDDMGFEASVEGSDAEPSTDTVVVGVEGMTCHSCVKSIEEHISKNPAVKSIKVSLADQNANIEYYPNRATPSTLRDAIDDMGFTASLPTDDVAVKVVQPKKSSGIKPKSPSESLKIELDKGAVSFRKGGDIVDDDLEKCFLRVTGMTCASCVATIEKNLMKVEGIHSCLVALMAQKAEVKYDPAYLLPSQIAAKISSLGFEATVLESEGFGQGVVELLITGMTCSSCVHMIESSIMKKPGVIQASVALSTCKGKFTYNPEVTGPRAIIEAIKSLGYQAELYTDDDKDAARYDHRDEIKRWRTSFLWSLIFGVPSVVIMMYFMFTPPPEEHNSVTNTTAGNYTTTHKPQTSSEGHYQIMIVAGLSLDNLLMFILATPVQFIGGRYFYIQAFKALRHGAANMDVLVVLATTISYVYSCVVVIVAMIMKEKTSPVTFFETTPMLMVFISLGRWLEHVAKGKTSEALAKLMSLQASEAVLVEIDKEFNILNEQTINVDLVQRGDVLKVVPGEKIPVDAKIIEGTTTCDESLITGESMPVSKKPGSSVIGGSINQHGMILVQATHVGSDTTLSQIVKLVEEAQTSKAPIQQLADKIAGYFVPGVVILSTLTVIAWAIVGYVDVTKVMPDFVNDGTISRDEVIFQKAFQYAITVLSIACPCALGLATPTAVMVGTGVGATNGILIKGGEPLECSHKLKCIVFDKTGTVTHGVPRVARVAMFVENSICSFVKLIAIAGTAENSSEHPLASAIVKYAKQTLKTETLGKTQNYQAVPGCGLKCTVTQIDGILVDIDMEGVNNRKNLMGSTRVKTDNVLYDREEISATIEESSLVGAVASRPYDVLIGNREWMTRNGLIVTDKMDETMIEHEHQGQTAILCAIDGNIIAMLAVADTVKSEAHLAISVLKDMGLQVVLLTGDNQKTARAIARQIGIHKVFAEVLPSHKVKKIKQLQKQGMKVAMVGDGVNDSPALAQADVGIAIGTGTDVAVEAADVVLIKNDLLDVAAAIQLSKKTVQRIRINFFAASIYNLIGIPIAAGIFVPWGLSLKPWMASAAMAMSSVSVVFSSLLLKTFKKPNKEKMLTPKYYAKFAADQELDNISVHRGVESMPSSREGSKQGSIISRLSGRKKPTTPDHTSLLEMGENSDSDSSDQLG"

     misc_feature    284..481
                     /gene="LOC111122539"
                     /note="Copper chaperone CopZ [Inorganic ion transport and
                     metabolism]; Region: CopZ; COG2608"
                     /db_xref="CDD:442020"
     misc_feature    509..712
                     /gene="LOC111122539"
                     /note="Copper chaperone CopZ [Inorganic ion transport and
                     metabolism]; Region: CopZ; COG2608"
                     /db_xref="CDD:442020"
     misc_feature    797..988
                     /gene="LOC111122539"
                     /note="Heavy-metal-associated domain (HMA) is a conserved
                     domain of approximately 30 amino acid residues found in a
                     number of proteins that transport or detoxify heavy
                     metals, for example, the CPx-type heavy metal ATPases and
                     copper chaperones. HMA domain...; Region: HMA; cd00371"
                     /db_xref="CDD:238219"
     misc_feature    order(815..823,830..832)
                     /gene="LOC111122539"
                     /note="metal-binding site [ion binding]"
                     /db_xref="CDD:238219"
     misc_feature    1037..1219
                     /gene="LOC111122539"
                     /note="Heavy-metal-associated domain (HMA) is a conserved
                     domain of approximately 30 amino acid residues found in a
                     number of proteins that transport or detoxify heavy
                     metals, for example, the CPx-type heavy metal ATPases and
                     copper chaperones. HMA domain...; Region: HMA; cd00371"
                     /db_xref="CDD:238219"
     misc_feature    order(1046..1054,1061..1063)
                     /gene="LOC111122539"
                     /note="metal-binding site [ion binding]"
                     /db_xref="CDD:238219"
     misc_feature    1382..1570
                     /gene="LOC111122539"
                     /note="Heavy-metal-associated domain (HMA) is a conserved
                     domain of approximately 30 amino acid residues found in a
                     number of proteins that transport or detoxify heavy
                     metals, for example, the CPx-type heavy metal ATPases and
                     copper chaperones. HMA domain...; Region: HMA; cd00371"
                     /db_xref="CDD:238219"
     misc_feature    order(1397..1405,1412..1414)
                     /gene="LOC111122539"
                     /note="metal-binding site [ion binding]"
                     /db_xref="CDD:238219"
     misc_feature    1607..1798
                     /gene="LOC111122539"
                     /note="Heavy-metal-associated domain (HMA) is a conserved
                     domain of approximately 30 amino acid residues found in a
                     number of proteins that transport or detoxify heavy
                     metals, for example, the CPx-type heavy metal ATPases and
                     copper chaperones. HMA domain...; Region: HMA; cd00371"
                     /db_xref="CDD:238219"
     misc_feature    order(1625..1633,1640..1642)
                     /gene="LOC111122539"
                     /note="metal-binding site [ion binding]"
                     /db_xref="CDD:238219"
     misc_feature    1871..4087
                     /gene="LOC111122539"
                     /note="P-type heavy metal-transporting ATPase, similar to
                     human copper-transporting ATPases, ATP7A and ATP7B;
                     Region: P-type_ATPase_Cu-like; cd02094"
                     /db_xref="CDD:319783"
     misc_feature    order(2918..2920,2924..2926,4019..4021)
                     /gene="LOC111122539"
                     /note="putative Cu binding site [ion binding]; other site"
                     /db_xref="CDD:319783"
     misc_feature    order(3050..3058,3260..3262,3470..3478,3566..3568,
                     3686..3694,3752..3754,3761..3763,3770..3772,3827..3829,
                     3836..3838)
                     /gene="LOC111122539"
                     /note="putative ATP binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:319783"
     polyA_site      5214
                     /gene="LOC111122539"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

ctctgttataattgggcgtaaataagaataaatgtgcctgtcaactgatttgcatgttatatagatcagtgtttctttagccaaagtgtgatttaaaaagttcaacatggctggccaaggaaaatacatgaaactaccgatgtttctggaggaaaaagaggcaaagattacttacagtcccactgagacatcccctcccatactggctgaacaaatctcagacatggggttcccttcaaaggtcaagctagtgcatccagtgaggggagacaactgtcaggatgccatcatcaatgtagggggcatgacatgtcagtcttgtgtcaagtccatagagtccaaaatgttggaggtcagtgggatactgggaataacagtgtccctgttgaagaaacaggcctatgtccagttcaacccgggcaaaatatctgctgagagtattgcttcagccatagatgacatgggttttgaggcctcggtacattccatcacacgtgataagggtctgaccaccaagataggggtggagggcatgacatgccagtcttgtgtcaactccattgaatctgccatgagaggcaagccaggagtaagagaaataaaggtgtctcttagtgataaagaggcctacatagtgtatgatcccaccctcaccagtccgggatcactccgggatcagattgatgatatgggatttgaagcaacactggcaagagagtcctctattgagagtgaatttgaccgcttggcgtcacgacagtcatccaccagatcagtgcaaagtgaattagtctgccaaatagctgtgaaagggatgacctgtcaatcttgtgtgaagaatattgaaagcaacatttcacccaaacccggagtaatgtctatatctgtgtcattggaaaaagaaatggccagtgtgacttacaaccccctggttaccaatcccacctccatagctgggatgatcgatgacatgggatttgaggcctcggtagagggttcggacgcagagccgtccactgatacggtggttgtgggagtagaaggcatgacctgccattcctgtgtaaaaagcatcgaggaacacatctccaagaacccggctgtcaagtccatcaaggtctctctggcagatcagaatgccaacattgagtattatcccaatagggccactccatccactttgagagatgccatagatgacatgggctttactgcatctctaccaacagatgatgtagcagtgaaggttgtacagcccaaaaagagcagtgggatcaaaccaaagtctccttcagagagtttgaagattgagctagataaaggagctgtgtctttcaggaagggaggggacattgttgatgatgacctagagaagtgctttctgagagtcacagggatgacctgtgcttcctgtgtggccaccatagagaaaaatctaatgaaagtagagggtatacacagttgtttggtagccctgatggcacagaaagcagaggtgaaatatgacccagcctatttattgccatcccagattgcggctaaaatttccagcttggggtttgaagccaccgttttggagagtgaaggatttggccagggagttgtggaacttttgataacagggatgacatgttcttcatgtgtgcacatgattgaatcctccatcatgaagaagccgggggtgatccaggcctcagtggccctatccacctgtaaaggcaagttcacctataacccggaagtcacaggtccaagggcaatcattgaggccatcaagtctttgggataccaagctgagttgtacactgatgatgataaagatgctgctcgttatgaccatagagacgaaatcaaaaggtggagaacctcctttctgtggtctctgatctttggagttccatctgtggtgatcatgatgtacttcatgtttactcctccccctgaggagcacaattctgtcactaatactaccgcagggaattacaccaccacccacaaaccccagacgtcatctgaaggtcactaccagatcatgatagtagccggtctctcactggacaaccttcttatgtttattttggccacaccggtacagtttattggtggacgatacttctacatacaagctttcaaggcgctccgacacggagcagcaaacatggacgtcctggttgttcttgccaccactatctcctacgtgtactcctgtgtggtggtcattgtggccatgatcatgaaggagaaaactagccccgtgactttctttgaaacaactcccatgttgatggtgtttatatcccttggtagatggctggaacatgtagcaaagggtaaaacatcagaagctcttgccaagctgatgtctctgcaggcttcagaggctgtgctggtggagattgataaagaattcaatattctgaatgaacaaacaattaatgtggatttagtgcagagaggggatgtacttaaggttgttcctggtgaaaagattcctgtggatgccaagatcattgagggaaccaccacttgtgatgagtcccttattacaggggagtctatgcctgtctctaagaagccaggttcctctgtgattggtggttccatcaatcagcatggcatgattctagtgcaggctacacatgtggggtctgacaccaccctgtcccagattgtcaagctcgtggaagaggctcagacctcaaaggcgcctatacagcagcttgctgacaagatagctgggtatttcgtacctggggtggtcattctgtccactcttactgtcattgcttgggccatagtgggctatgttgatgtcaccaaagtcatgccagacttcgtgaatgatgggaccatttccagagatgaggtcatcttccagaaggctttccagtatgccatcacagttctaagtattgcctgtccttgtgccctggggctggccacacccacagctgtcatggtgggaactggtgtaggggccacaaatgggatactgatcaaggggggtgaacccctggaatgttctcacaaattgaagtgtatagtgtttgataagactgggacggttacccatggggttcctcgtgtcgcccgtgtggccatgtttgtggagaactcaatctgctcatttgtcaaactgatcgccattgctggaactgctgaaaatagcagtgaacatcccctggcttcagccatcgtcaagtatgcaaaacagactctgaagacggagaccttgggtaagacccagaactaccaggcagtgccaggctgcggtctcaagtgtaccgtgacccagatcgacgggatactggtggacattgacatggagggtgtgaacaacaggaagaacctaatgggcagcaccagagtcaagaccgacaatgtcctgtatgacagggaggagatcagcgctactattgaagagagtagtttggttggtgcagtggcctccaggccctacgacgtactgattggaaaccgtgaatggatgacaaggaatggattgattgtgacagataaaatggacgaaacgatgattgagcacgaacatcagggacaaacagccattctgtgtgctattgatggtaatattatagcgatgttggctgtggccgacactgtgaagtcggaggctcacctggcaatcagtgtccttaaagacatggggctacaggtggttctactgactggagacaaccagaaaactgccagagccattgctagacagattggaatccacaaagtctttgctgaagtcctaccctctcacaaagtaaagaagataaaacagcttcagaagcagggtatgaaggtggcaatggtaggggatggggtgaatgactcgcctgccctggcccaggcagatgtgggcatcgccataggaaccgggaccgatgtagctgtggaggcggctgatgttgtcctcatcaagaatgatcttctagatgtggcagcagccattcagctctcaaagaaaactgtccagagaatacgcatcaactttttcgctgcttccatttacaacttgattggcatcccaattgcggctgggatctttgtgccgtggggtctgtccctcaagccctggatggcatcagcagctatggccatgtcctctgtatctgtagtcttttcctctttactcctcaaaacgtttaagaagcccaacaaggaaaagatgctgactcctaaatattatgcaaagtttgctgcggaccaggagctggacaatatttctgttcatcgaggcgtggagagtatgccatccagccgtgaaggaagtaagcaaggaagcatcatttcacgcttgagtggtcggaagaagccaaccacgccagatcacacaagtctgctggagatgggagagaactctgactccgactccagtgatcagctgggataagcatcaactggatgctttagtttgtgaatcatgaacttgtataaacttgtttcaggtggataccactgtcatcataatgttgtaatcagacactaagataaggaaaaagtcagccatatttatagctcagtggtccaatgcatttagtttcaaattaggcatttgagccccaagtttttaaaaatattatacaacacattatgctaaattatgttcagtaaattggtacaattgtattacacaaattcaagtcacagaactgtgatacattaacatttgattcagagcttatttctccttccccttttcaaaaatgtgtcacgcattagatatttggtttttatattaatttgaagctttcacaagaattagttttgcatcatggtagaatatttatctagtttccacaactgtagaatgtatatatcacttatgacaaacttaatacaatcatgtaatcattgtcatgttgttttcttttaaggattttgcttggtaacacttacaggagtatttttactactcaattgtgtacttaagagtcccaaccatttaccagtttttaaccgttgatgatgtgtcccctttgttgtccatcttttacatacacaccttctagtgtagtccctcaaatacatctgtaatacagtccagttcaaacaacacaagtgatttgttgttcagaatagaacaggccaataatctggataaagcagagctttgacagacagtttcatctgtctcctactgaatttgttatgacttgtaactgttgcttatacatgtgtgttatgaataaaaatcttatatta

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