LOCUS       XM_073931348            3984 bp    mRNA    linear   VRT 12-MAY-2025
DEFINITION  PREDICTED: Danio rerio E3 ubiquitin-protein ligase TRIM39
            (LOC100149991), transcript variant X2, mRNA.
ACCESSION   XM_073931348
VERSION     XM_073931348.1
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_133194) annotated using gene prediction method: Gnomon.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##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..3984
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /isolation_source="Zebrafish international resource
                     center"
                     /db_xref="taxon:7955"
                     /chromosome="19"
                     /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..3984
                     /gene="LOC100149991"
                     /note="E3 ubiquitin-protein ligase TRIM39; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 244 long SRA reads, 16 Proteins"
                     /db_xref="GeneID:100149991"
     misc_feature    1
                     /gene="LOC100149991"
                     /experiment="COORDINATES: cap analysis [ECO:0007248]"
                     /note="transcription start site"
     CDS             232..1347
                     /gene="LOC100149991"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase TRIM8 isoform X2"
                     /protein_id="XP_073787449.1"
                     /db_xref="GeneID:100149991"
                     /translation="

MAESSQKGRQIRRKSLDFPPDMSSSGGPLSEELQCSVCLEVFTDPVTTPCGHNFCKTCLNKCWNDSETCSCPYCKETLNQRPDLKINTTLREISDRYKQKSPDGGAVVACDLCEDRTAVKSCLVCQSSYCETHLQPHLKEAALKKHMLMDPVSNLEDYICQTHQRPLELFCRDDQTCVCLECVVTDHKTHNTVPLEMESKEKKAQLMKTQRDMQKMIQDINKEIEDIKHSAEARRRASTEVLELMEEQDSERMSALEQEISELESRNTELEQLSHTEDHLHLIQIHSSLSSFRNTRSRSEISWKTHETLKRALIKLKESIDEKLEQTASEELKWMQQYAVDVTLDPDKGHSDLKLSDDGKQGGILLGEILF"

     misc_feature    313..519
                     /gene="LOC100149991"
                     /note="RING finger (Really Interesting New Gene) domain
                     and U-box domain superfamily; Region: RING_Ubox; cl17238"
                     /db_xref="CDD:473075"
     misc_feature    order(334..336,343..345,379..381,385..387,394..396,
                     403..405,442..444,451..453)
                     /gene="LOC100149991"
                     /note="cross-brace motif; other site"
                     /db_xref="CDD:438111"
     misc_feature    556..696
                     /gene="LOC100149991"
                     /note="B-box-type zinc finger superfamily; Region:
                     Bbox_SF; cl00034"
                     /db_xref="CDD:469587"
     misc_feature    706..840
                     /gene="LOC100149991"
                     /note="B-box-type 2 zinc finger found in tripartite
                     motif-containing proteins, TRIM16, TRIM29, TRIM47 and
                     similar proteins; Region: Bbox2_TRIM16-like; cd19769"
                     /db_xref="CDD:380827"
     misc_feature    order(709..711,718..720,742..744,751..753,766..768,
                     775..777,790..792,799..801)
                     /gene="LOC100149991"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:380827"
     misc_feature    <814..>1224
                     /gene="LOC100149991"
                     /note="Chromosome segregation ATPase Smc [Cell cycle
                     control, cell division, chromosome partitioning]; Region:
                     Smc; COG1196"
                     /db_xref="CDD:440809"
     misc_feature    1243..>1311
                     /gene="LOC100149991"
                     /note="SPRY domain; Region: SPRY; cl02614"
                     /db_xref="CDD:470632"
     polyA_site      3984
                     /gene="LOC100149991"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

aaagaaagtgaaacatctgttcaacatggatgccagtgatcattctatttaacaacataacatttaaaccgttcttatgcagacagaaaacgttaggttatagaaaattaccatcattaatgaaatgccgcggccatagcatttgaacgttaaatgcagtttcatgtcccgccgaattacttgacgcctccatggtcaatataactaagaggcttgaggaggggaagaataatggcagaatcatcacagaaaggaagacaaatcaggagaaagagtttggactttcctccagatatgtcttcctctgggggtccacttagtgaggagctccagtgttctgtttgtctggaggtgttcactgatccggtcaccactccatgtggacacaacttctgcaaaacctgcctgaataaatgctggaatgacagcgagacctgcagctgtccatactgtaaagaaacactcaaccaaagacctgatctgaagatcaacaccacactgagagagatctcagatcgctataaacagaagagtcctgatggaggagctgtagtggcgtgtgatctgtgtgaggacagaacagcagtgaagtcatgtctggtgtgtcagagctcttactgtgaaactcacctgcagcctcatttaaaagaagcagctttgaagaagcacatgctgatggatcctgtgagtaatctggaggactatatctgtcagacacaccagagaccgctggagctcttctgcagagatgatcagacgtgtgtgtgtctagagtgtgttgtgacagaccataaaacacacaacactgttcctctagaaatggagagcaaagaaaagaaagctcagctgatgaagacacagagagacatgcagaagatgatccaagatataaacaaagagattgaggacatcaaacactcagcagaagccagaagaagagcttccactgaagtgctggagttgatggaggaacaggattcagagcggatgtcagcgctggagcaggagatctctgagctggagagcagaaacactgagctggagcagctctcacacactgaagatcatctacacctcatacagattcactcttcactcagcagcttcagaaacaccaggagcaggtctgagatcagctggaagactcacgagactctaaagagagctctgattaaactgaaggagtccatagatgagaaactcgagcaaactgcctctgaagagctgaagtggatgcagcagtatgcagtggatgtgactctggatcctgataaaggtcatagtgacctcaaactttctgatgatggaaaacaaggagggattctcctcggggagattttattttgaggtgctggtgaaggaaaagacggactggactttaggagtggccagagaatccactgacaggaataaagagattacagtgagtccccgaactggatgctggactgtggctctgattaatggaaatgattatcgtgcctgcaatgatcctccagtctctctgtctctgagagtgactccgcagcgggtcggtgtgtttgtggatcatgaggaaggtttggtgtgcttttatgaagtggagaccagctgtcatatttattcttttactggtgagtcttttcatgacaccctctatccgttttttagtccaggccctaatccatgtggtaaaaattcagctccgttgattatcacacctgttgattagtcattgaactcaaacccccaaattaggcctgagtcgggaatgaagttttttttttacaaatgagaatgtagcgaagcttaacatttaaagagcccctattttgcattataaaaggtcatactttggttttgggcgtctgagagatacagtgcaagcactgagctataataaatacaggattacaagcctcgcggggggattacaacttaaaacacacaaataaacacatattttgcaaactacacaaaatgaggcaacacttttaatgacacttatatgttctgatccgaaggaagaagaaactggtccatatgaactgtaacagttacaaagtccaggtcaaagtctaatacataatagtctctgctgctcctctaatagcaaacggacgacaagtcgactctttcatttaagaatcaatcgttttaatcatggtgcacttttacacactttgttacacactgcatggaagctcattttcaaaaaccctaatagggtctctttagggcttgtgaaagaagctttcacctttaaaaatgtccataatgttttgcctcattttggtcaaaataaatgaatcaaagtgaaactacaacataccagtacattgcgtgataaactagtttacaatacttatttatttttggtcacacagaatatgacaaactgtgaacatttcacttttatttaacaaaacggttttgtgttctggtttttgatttggccgcggaagcatggctttttcttgaatgcactcacgcatgtcacctcaaatgtttgtttttttaatttattttaaagataactgagcaacaaaaatacataaacattaagatataagttatgactaatgtaattcatttcaaataaagggatatttccaacaaaaacatatgaagtggtcaaaaatgatcaaccttggtggtatggaggtcgaccatcactaatgttactgtgtttaacatccactggtattcacatgcattttaggatagctggcattatacttaacctattgggtatgtgtggaagtatgtggaaggactttaaaacattttttcactggtaaactgtatgccattgcaaaatgagcacgtttaagatctgtttctttaataatcagcgatcttcactgcctgattgatatccaatataaagtggatctcagtttgtacaaaaagcactgcattaaatgacattttctgcattaaatgacattggagcttctgcactagcctgccgatcctggtgggcatgtgcaagtaaacatctttttgtctcgttttacgcttgaacaactaaatgaacctggaagtttatttaactgattgtattttaactactttacaacatccatgctgtaaaaacaaccttgtgaaattgaaaaaagtcacattaaccgtttaccagaaggttatcagtatgggaagaaacactagctgtgcgtatacccaatttactatggagcgcaaataatttaagtcattaactttggatagaaattgtctaatattaataccctgcatatttacacaaacatcacttgttgcactcatagagattgttctcatggtctcctgagtttgttcttctgaggtgacctggcaaaaccgatctccacaagaatgcaagtctattctctgctttttttggatttaaaaaaacagcccatgttttaatcctcgattagtctcacgcaatcatgtgatgcgatttcgcaggtcagagttcaccaagcttgaaatttgcaatgcagcgaactgcgaaaacttgtcgcacgagtttccaatttgccgcattcacatgcgtatttatggaagtctatggggagaaaagtccaatgtgaccacagctttaaacgccttgattatttggatcagctgtgttagaatagggttgaagcaaagctgtgcagaactgcgatcctccaggaattgagtttgagacctttgttttaaggggagatgctccatgttgagactgtgataagccacatagcctgtctgtcttcatcttttattaaattaagctttgtaaaacagtcagtgtaaataacacagttgagatgactactgtaactatgtggctttctggaaagcgctgggatccatacaggtggatgccacacagtgtcaaattcagcactggttttagacatattgaggtaattttacactgttctcatctgaaacgaaaactgaatgcatgtgtagtaaatacacaaaaacacttgtaaataaagcgctgaaataaagacagtttctataaagaca

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