LOCUS       XM_009297090            8567 bp    mRNA    linear   VRT 12-MAY-2025
DEFINITION  PREDICTED: Danio rerio FYVE and coiled-coil domain autophagy
            adaptor 1a (fyco1a), transcript variant X1, mRNA.
ACCESSION   XM_009297090
VERSION     XM_009297090.5
DBLINK      BioProject: PRJNA1248012
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_133198) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On May 12, 2025 this sequence version replaced XM_009297090.4.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: GCF_049306965.1-RS_2025_04
            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             :: 04/11/2025
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..8567
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /isolation_source="Zebrafish international resource
                     center"
                     /db_xref="taxon:7955"
                     /chromosome="23"
                     /sex="male"
                     /tissue_type="Fibroblasts and whole tissue"
                     /dev_stage="adult"
                     /ecotype="United States"
                     /geo_loc_name="USA"
                     /collection_date="2022-07-19"
                     /collected_by="National Human Genome Research Institute"
                     /genotype="Double heterozygous"
     gene            1..8567
                     /gene="fyco1a"
                     /note="FYVE and coiled-coil domain autophagy adaptor 1a;
                     Derived by automated computational analysis using gene
                     prediction method: Gnomon. Supporting evidence includes
                     similarity to: 2 ESTs, 3485 long SRA reads, 6 Proteins"
                     /db_xref="GeneID:565649"
                     /db_xref="ZFIN:ZDB-GENE-110411-276"
     misc_feature    1
                     /gene="fyco1a"
                     /experiment="COORDINATES: cap analysis [ECO:0007248]"
                     /note="transcription start site"
     CDS             144..4637
                     /gene="fyco1a"
                     /codon_start=1
                     /product="FYVE and coiled-coil domain-containing protein
                     1"
                     /protein_id="XP_009295365.1"
                     /db_xref="GeneID:565649"
                     /db_xref="ZFIN:ZDB-GENE-110411-276"
                     /translation="

MATGAAVGDSQIQRIIRDLRDAVSELTKEYKESGEPITDDSSNLHKFSYKLEYLLQFDQKEKTTFLGSRKDYWDYFSDCLAKIKGANDGIRFVKSISELKTSLGKGRAFIRYSLVHQRLADTLQQCLMNSRVTSDWYNPRSPFLKPHLSVDIISYLYELNDVQFDVASRGHDLDAEWPTFARRTLGMTSSPSHLWKAPSRSSSINSLASTYSQQHHEFPGSPDFGPGLLSDMSMQNSSILNDTSMSAIDELRLELDQSELKQRELIDRIQQLGDEGSELRGVVVELQRQLDVSLAAQGNHQELQRNLEVLIESEHALSREVEVLRDRETRREVSHKDLQDMLAAAERKNEELMTRLDGVLDEKGQRAASDFNSAQKIHELLNELKEAEKKRMDALAEGEEKRRHAEHLAEEVKVKDEALKEAEVKMAAWMEKGEQLQTRAVEQRNFMEKLQGALAVREKETSNLQRQLRDLQNSLENMEKQANVEKKRMQDDKEELEMKMNGLEGLLQSLRTQLKVKESDLLSSTKRVHFLERESEKLRSENQKLEYELENSTKKEAKKIDEYKDSCAKLIEQNTKLLQTVNKNEESKKELLENKSSLESELAGLRASEKQLRAQIDDAKVTVDEREQRLREENRNLDESLQKANMQLEESESSIRQKEQENKDLMEVQVTLKSALAAMQKEIRDINNQIGELEKNLGVARCNEANLNAQLKDKATQLEDREKLCEELQGRVEELESRQRDLEVEKTKAERAFVKQTEMIQSLEAQRNLAEKTQLEKSTCQAKETKEMALKLTLLEDQLGLSAKEVSKLQEEVVNLRAKLHSAVEEKDKTQAKLEVTEASCAELRILTEHLKKQAEEQNRLHVSELLQSSEHVDKLTSQLNQETSAHEKTTAALASAKEDLVALKAQNERMVLENAETRESLHRVNTEMAELGMTICKLTAEREEARERWAAEAVRIQELQQHGVKETERLNASLVALHQENSSLQEELQQTDKLSETMLELKQLLDKTEGERDAAREEITAVKFQMSTESMSLKHQMKSLQEEIDGLKDQLDTERKKKSELEAKLSELEGANVEYSRLIEEKDSHITYCETLLRESESETQQLQERASRSKEALSDVEKEREELKQKLDQVLMETQNQHLRMSAELEDLGQTKVNLEERLIELIRDKDALWQKSDALEFEQKLRAEEQWWLVDKEATHCLGCQGQFTWWLRRHHCRLCGRIFCYYCSNNYVMTKNSKKERCCRECYTQHGAVVERFTKAELNSSSDNQPSNTAAQLPPPPYIPTPRVTVTDPGERADDGAFDIITDEEVNQIYDSDSRTTNGSHEEEGGQTGDNSVSSDVTSEEQEDMISVQDAEITLLKSGELSASVPLDIDEIPHFGDGSRELFVKSSCYSTIPITVGDRGPIISWVFSSEPKSISFTVVYRETLDTPVEQAKVLIPLTRCNSHKETIQGQLKVRNAGVYTLIFDNSFSRFLSKKVNYHLTIEKPVIYDGSDFP"

     misc_feature    171..641
                     /gene="fyco1a"
                     /note="RUN domain found in FYVE and coiled-coil
                     domain-containing protein 1 (FYCO1) and similar proteins;
                     Region: RUN_FYCO1; cd17698"
                     /db_xref="CDD:439060"
     misc_feature    <846..1796
                     /gene="fyco1a"
                     /note="chromosome segregation protein SMC, common
                     bacterial type; Region: SMC_prok_B; TIGR02168"
                     /db_xref="CDD:274008"
     misc_feature    1482..>3710
                     /gene="fyco1a"
                     /note="chromosome segregation protein SMC, common
                     bacterial type; Region: SMC_prok_B; TIGR02168"
                     /db_xref="CDD:274008"
     misc_feature    3714..3884
                     /gene="fyco1a"
                     /note="FYVE domain found in FYVE and coiled-coil
                     domain-containing protein 1 (FYCO1) and similar proteins;
                     Region: FYVE_FYCO1; cd15726"
                     /db_xref="CDD:277265"
     misc_feature    order(3714..3716,3723..3725,3777..3794,3798..3803,
                     3864..3872)
                     /gene="fyco1a"
                     /note="putative phosphatidylinositol 3-phosphate binding
                     site [chemical binding]; other site"
                     /db_xref="CDD:277265"
     misc_feature    <4437..4592
                     /gene="fyco1a"
                     /note="GPCR-chaperone; Region: GPCR_chapero_1; cl46312"
                     /db_xref="CDD:480652"
     polyA_site      8567
                     /gene="fyco1a"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

agaagaagaaggcgaagacttcaatggcggagatgtctgtcaatcaaaaagtaggtcgtgccgtgatgtaaaggacaataacaacaaagcacaaaagtctaccgatgacctcttgacacctccagcaggaagctagtcagaccatggccactggtgctgcagtcggggacagtcagatccagaggattatcagagatctgcgcgatgctgtttccgaactgacaaaggagtataaagagagcggtgagcccattactgatgacagctccaatctgcacaagttctcctacaagctggagtatctgcttcagttcgaccaaaaggagaaaacaacatttctgggctccagaaaagactactgggattacttcagcgactgcctggccaaaatcaaaggagcaaatgatggaattcgcttcgttaaatcaatttcagagctgaagacgtctctgggcaagggcagagcatttatccgttactctctggtgcatcagcggctggcagacacactccagcagtgcctcatgaactccagagtcaccagtgactggtataatccgaggagtccgtttctcaaaccccatctcagcgtggacatcattagttatctctacgagctcaatgatgtccagtttgatgtggcatccagaggtcatgaccttgacgcagaatggcccacttttgccaggaggacattaggaatgactagctctcccagtcacttgtggaaagcaccgagtcgtagttccagcatcaacagtctggccagcacatactcacagcagcaccatgagttccctgggagtccagactttggacctgggcttttatcagatatgtctatgcaaaactccagcatactgaatgatacctcaatgagtgctatagacgaactccgtctggagcttgaccagtctgaattaaagcaaagagagcttattgaccggattcagcagttaggtgatgaggggagtgaactgcgtggagttgttgtggaactgcaaaggcagctagatgtttctttagcggcccaaggtaaccatcaggagctacaacgtaacctggaggtcttaattgagagcgaacatgcactctcccgtgaggtggaggtcttaagagatcgagaaaccaggagggaggtttcccataaagaccttcaggacatgctggcagcagcggagcgtaaaaacgaggagctgatgacaaggctagatggagtattggatgagaaaggtcaaagggcggccagtgatttcaactcagcccagaagattcacgagcttttgaatgaattaaaagaggctgagaagaagaggatggatgctctggctgaaggagaagagaagaggaggcatgctgaacatcttgccgaggaagtcaaagtgaaagatgaagctctcaaagaggctgaggtgaaaatggcagcttggatggagaagggtgaacaactgcaaaccagggcggtggagcagcgtaatttcatggagaaacttcaaggtgcacttgcagtaagagagaaagagaccagcaacctgcagaggcaactacgagatcttcagaactctctggagaacatggaaaagcaggccaatgtggagaagaagaggatgcaagatgataaagaagagcttgagatgaaaatgaatggtctagaggggctgttacaatcacttcggacacagttaaaggttaaagaatctgatcttctctccagtaccaagagagttcatttcctggagagggaatcagagaagcttaggagcgagaatcagaagttggagtatgagttggagaacagcaccaaaaaggaggccaagaagattgatgaatacaaggatagctgcgccaagcttattgagcaaaacactaagcttctgcagacggtgaataagaatgaagagagcaagaaagagttgcttgaaaacaaatcatccttggagagcgagttggcgggattgagggcctcagagaagcagttacgagctcaaatcgatgatgccaaagtgactgtggatgaacgagagcagcggctgagagaggagaacagaaatctggatgagagtctgcagaaggccaacatgcagctggaggaatccgagagctcaattcggcaaaaggagcaggagaacaaggacctcatggaggttcaggtcactcttaaatcagctctcgcagccatgcagaaagagatacgtgacataaacaaccagatcggtgaacttgagaagaatcttggagttgcgaggtgtaacgaagcaaatctgaacgcgcagcttaaagataaggccacccagctggaagatcgagagaagctctgtgaggagctccagggaagagtggaagaactggaaagtcggcagagggatttggaagtggagaagacaaaagcagaaagagcctttgttaaacaaacagagatgattcagagtcttgaagcacagagaaacctggcagagaagacacaacttgaaaaaagcacatgtcaagctaaagaaactaaagagatggccttaaaattgactcttctagaagatcaactgggattgagtgcgaaggaagtttctaagctacaagaggaagtggttaatctcagggctaaacttcacagtgctgtggaggagaaggacaagacgcaagcaaagcttgaggtcaccgaagcttcctgtgctgaactgcggatcttgactgagcacttgaagaagcaggccgaggagcagaatcggctgcatgtgagcgagctgctgcagtctagtgaacatgttgataaattaacttcgcagctgaaccaggagacctcagcgcatgagaaaaccactgcagcacttgcttccgctaaagaggatctagtggctctcaaggcccagaatgagcggatggtcctggagaatgcggaaaccagagagagtctccaccgggtcaacactgaaatggcagagttgggaatgactatttgcaagctcaccgccgagcgggaagaggcccgggaacgttgggccgctgaagctgtacgcatccaagaacttcagcagcacggagtgaaggagacagagcgactcaatgccagcttggtggctctgcatcaagaaaactccagtctgcaggaagagctccagcaaacagacaaactgtcagaaaccatgctggagctaaagcagctgctggacaaaactgagggcgaacgggacgctgcacgggaagagatcaccgctgtgaaattccagatgagcacagagagcatgtctctcaagcaccaaatgaagagtcttcaagaagagattgacggtttgaaagatcagctagacacagagaggaagaagaaatcagagctggaggccaaattatccgaactagagggagcgaatgtggaatactctcgtctgattgaggagaaggactcgcacattacttactgtgagactttgctgcgtgagagcgagtctgagacacagcaactgcaggaaagagcatcaagatccaaagaggctcttagtgatgtagagaaggagagggaagaattgaagcagaaattggatcaagtgttgatggagactcagaaccagcatctccgcatgtctgctgaactggaggacctgggacaaactaaagtcaacctggaggaacggctcattgaacttattagagataaggacgctctgtggcagaagtctgatgctctagagttcgagcagaagctaagagcagaggagcagtggtggctggtggataaagaggccacacactgtctgggctgccagggtcagttcacatggtggctgcggaggcatcactgcaggttgtgtggccgtatcttctgctactattgcagcaacaattacgtgatgaccaaaaactcaaagaaggagcgctgctgtcgagagtgttacacacaacacggcgctgtggtggagagattcaccaaagctgaactcaacagctcatcagacaaccagccatcaaacactgccgctcagctgccaccgcctccatatatacccacaccaagagttacagttacagatcctggtgagagggctgatgatggagcgtttgacattattacagacgaggaagtgaaccagatctatgacagcgactcgcgcaccaccaatggatcacatgaggaggaaggaggacaaaccggagataatagcgtatcaagtgacgtgacgtctgaagaacaggaagacatgatttcagtacaggatgcagaaatcaccctcctcaagtcaggagagctcagtgcctctgtgcctctggatatagatgagattcctcatttcggcgatggctcccgtgagctgtttgtcaagtccagttgttacagcaccattcccatcacagtgggcgaccgcggacccatcatcagctgggttttctcctccgagccaaagagcatctccttcactgtggtgtacagagagacacttgacacacctgtcgagcaggccaaggttctgattcccctcacgcgctgtaactcacacaaagagaccatacagggacaactcaaagtgcgcaacgctggagtctacacactcatcttcgataactcattctccagatttctctccaagaaggtcaactaccacctgaccattgagaagcccgtcatctacgatggaagtgacttcccttaatagcagtgttgtggtttgtagtgtctacagtttgtgtaaaactgactgttaagtattgactttatcattttaattcagacctgttcctgtgtaccaagggcttcggttttacacatttattttatattttaatgttttaccactgatagaatagctgtaatctgttgtgactggtgttatgaacgggtttctacagttgcatgaaagcagaatatttgctttttttgttgtgtgttttaatattattagtgtggttttagccgttttaaatgattacagacactacagatgaattcagatatacagggcaggtgaagctcatgtgggtaaatatccaaccacaatgacacaatcacaaattacctttaaaaactgacaatttcaacatttgttttcatttatagctgcatatgactttgacaagactttgcagatattttacactacattttcactacagttgttcaccataagctacatgagttcacctagtaaacgaaaatgtttaatattttgtcattttaaggtatttttatagtattttgaaaataggctgacaatgtcacactgtatggtacaaaaacatacagcagctgcttttaaaaacactatctagtacttttatttactcaaatctggccattcagataatatttcatgacacaatctgttagttttacttcaattgtgtattttccattgaggtaattaacccaaatgtcactggaaagacagcagttgatctatataactgctaactattcttgtgtcagtcgtgttattaatatatatgcacaatgtatgcaatgtacatgcaaatgaggcactttttcctcgtctacgccatgcaaaaacttttgcagtacattgactaaaacggcacatgttttgtactcatgtagcacttgcatagaggatatttttgtacgccgttcagttttgatctgataaaattggtttagagatcatattcgtaatattttcggacatttgattttaataataatatataatatattctgttgaatgtgcattattggatttgcatcatgataggtcaacattagtaatataaacaccatttatagttagggttcatacattttcggacatcaacacagttctaacatttttggctctatacaccaacacaatggatttgaaatgatcaagatgtgttttaactgcagacggtcagctttaaattgaaggtatttacatcaaaatcaggtgaacgctgtaggaattacaacagtttgcatatgtttgccacccacttgttaagggtccaacagttggcttctaagctgttccatggcctggtgtgtgttattcaagcctgatctcacgaaaaagcttaagtattttacattttttcagtttagtggctaatttgttgaagttcagtcgtacgaaattgtacgattttaaaaagaaggcgtggcacctgaccccacccctaaaaccaatcgtcattgggggataaacaactgtatcgtacaaattcatacgaattagccattaaatcaaaaagtaatgaattgccgtgagattgtgttggttattgcctcattatcccaatcacaatgagcagataaaagatttagagttcatttctagtgtgttatttgcatttggaatctgttactgtcaactctcaagatgagattcaaagagctgtcactatcagtcgagcatgtcatcgttaggctgaaaaaacaaaacaaacccatcagagagatagcaaaaacatcaggagtggccaaaacaactgttttggaacttcttaagaagaaagaacgcaccactgagctcaacaacactaaaagactcagaagaccacaggaatattggatttacgtccaaatcaggtgaacgctgtaggaattacaacagtttgcatatgtgctcccacttgttaagggtccaaaagtaattggacagaataataatcataaatcaaactttcaatttttaatacttggttgcaaatcctttgcagcctaaagtctggaacgcatagacatcaccagacactgggtttcattcctggtggtgctctgccaggcctctacagctcttcagttcctgcttgttcttgggggattttaccttcacttttgttttcagcaagtgaaatgtaagctcagttagattcaggtcaggtgattgacttggccattgcacaacattctacttctttcctttcaaaaactttggttgcttttgcaggatgctttggctcattgtccatctgcactgtgaagctccgttcaatgagttctgaagtatttggcttaatatgagcagaaaatattgcctgaaacacttcagaattcatcctgctgattttgtgagcagtcacatcatcaataaatacaagagaaccagtttcattgacagccatacatgcccacgccatgtcactactaccaccttgctttactgcttaggattaagagcagtttctttccttctccatatgcttctattcccgtcactctagtacaagttgatcttggttttatccatccataggatgttgttccagcatggtgaagccttttgtagaactctaatctggccttcctgtttttgaggctaaccaatggtttagatcaggggtcaccaatctcggtcctggagagccggtgtccctgcggtttttagctccaacttgcctcaacacaccagcttggatgattcaagtttaccaagtaagaccttgattagcttgttaaggtgtgtttgattagggttggagctaaaatctgcaggacaccggccctccaggaacaggtttggtgaccactggtttacatcttgtggtgaaccctctgtattcactctggagtagccttctcttgattgttgactctgacacacatacacctaatgtacctcctggagattgttcttgatctggccaactgttgtgaagagtgttttctttaccagggaaagaattctttggttgtccaccaattaatgttgttgagttcactggaatgtttctttttctttaacaatgttccaaacagttgttttggccactcctgatgtttttgctatctctctgatgggtttgttttgtttttttctgcctaacgatggctagcttgactgatagtgaccgctctttggatctcattttgagagttgacagcaacagattctaaatgcaaatagctcacttgacatgaactctagatcttttatctgctcattgtgattggaataatgagggaataacacacatctggccatggaaatgcttagaagccaattgtccaattacttttggaccctcaacaagtgggaggcacatatgcaaactgttgtaatcgctacagcgttcaccagatttggatgtaaataccctcaaattaaatctgccagtctgcagttaaagcacatcttgttcgttttaaatcgatggtgttggtgtatagagccaaaaatgttagaattgtgccgatgtccaaatatttatggacctgactgtatatagtgtttataaacaatataaacactaaaagagttcaaatgttcatgtctcatgtttgtatagttttttaatcaaccttgacagaaaatatgcaagacacgcatgtttgttcaggtttaagattcatgtttcattctcccggtgacaaagctgaactctgctgctcttaagaagattgtttatatattttgatcgcatctcaagctcttttttaaactatgtgcaatttaaaatcatttcctaataggtctttttcctcccaaaatgatattttaaaatcaatttatgaagttaagagcggatgtttttgtgaataattcatgaatgtctctgaatttgctgatgatacttctgtgaatctatgcaatcaatgtttacacattgcaaagtcttttaaatgcaataaatgttgtatgagttca

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