LOCUS       XM_005158665            9749 bp    mRNA    linear   VRT 12-MAY-2025
DEFINITION  PREDICTED: Danio rerio dicer 1, ribonuclease type III (dicer1),
            transcript variant X1, mRNA.
ACCESSION   XM_005158665
VERSION     XM_005158665.6
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_133192) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On May 12, 2025 this sequence version replaced XM_005158665.5.
            
            ##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..9749
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /isolation_source="Zebrafish international resource
                     center"
                     /db_xref="taxon:7955"
                     /chromosome="17"
                     /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..9749
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="dicer 1, ribonuclease type III; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 2 mRNAs, 13 ESTs, 9511 long SRA reads, 20 Proteins"
                     /db_xref="GeneID:324724"
                     /db_xref="ZFIN:ZDB-GENE-030131-3445"
     misc_feature    1
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /experiment="COORDINATES: cap analysis [ECO:0007248]"
                     /note="transcription start site"
     CDS             333..5930
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /codon_start=1
                     /product="endoribonuclease Dicer isoform X1"
                     /protein_id="XP_005158722.2"
                     /db_xref="GeneID:324724"
                     /db_xref="ZFIN:ZDB-GENE-030131-3445"
                     /translation="

MAGLQLVTPASSPMGPFFGLPWQQEAIHDNIYTPRKYQVELLEAALEHNTIVCLNTGSGKTFIAVLLIKELSHQIRGENGKRTVFLVNAASSVAQQASTVRTHSDLQVGDYMSEDMTSWPEEMWNREMIENQVLVMTCHIFLHVLKNGVLPLSKINLLVFDECHLAITGHPYREIMKICEGCPSCPRILGLTASILNGKCDPCDLEEKIQNLEKILQSNAETATDLVVLDRYASQPREEVLDCGQYQDQSGLSERLLNELDEALSFLNDCNLSVHREDRDPTFISKQVLNDCRAVLTVLGPWCADKAAGIMVRELQKYIKHEQEELNRKFLLFTDTILRKIHALCEEHFSPASLDLKFVTPKVIRLLEILHEYKPFERQQFESVEWYNNRNQDNYVSWSDSEDDDEDEEAEAKEKTEANFPSPFTNILCGIIFVERRYTAVVLNRLIKEAGKQDPELAYISSNFITGHSIGKNQPRNKQMEVEFRKQEEVLRKFRAHETNLLIATSIVEEGVDIPKCNLVVRFDLPTEYRSYVQSKGRARAPVSNYIMLADSERTKTFQEDLKTYKAIEKILRNKCSKSAECNDFELEPVTDDDNVLPPYVLRSEDGGPRVTMNTAIGHVNRYCARLPSDPFTHLAPKCKTVEMNTGGYRSTLFLPINSPLRVPVTGPVMNCARLAEKAVALLCCEKLHKIGELDDHLMPVGKETVKYEEELDLHDEEETSVPGRPGSTKRRQCYPKAIPECLRGCYPVPEQPCYLYVIGMVLTTPLPDELNFRRRKLYPPEDTTRCFGILTAKPIPRIPHFPVYTRSGEVTISIELQKSGFSLSAEQLELITRLHQYIFSHILRLEKPALEFKPVEADSAYCVLPLNIVEDSNTLDLDFKFMEDIEKSEARIGIPNTQYTKQNPFIFKLEDYQDAVIIPRYRNFDQPHRFYVADVYTDLTPLSKFPSPEYETFAEYYKTKYNLDLSNVNQPLLDVDHTSSRLNLLTPRHLNQKGKALPLSSAEKRKAKWESLQNKQILVPELCAIHPIPASLWRKAVCLPSILYRLHCLLTAEELRSQTAIDAGVGAQTLPPDFRYPNLDFGWKKSIDSKSFISCPSACMEEDDDHCKLGTSSDSNHTAPESCSMEVSQPPDGALNTPDEKLETLALPVTDLNKDCFPNLPNGTQADSDDLPHRSDVCQCSQLGPLERDLSTQTTTSVSVRPSPAGEPQPWPSDECTGRSSDLCDPHVKKPTSKHCPKSETATSTAAPSETSSEDCRSACAGPAWDSPKTLGPNPGLILQALTLSNASDGFNLERLEMLGDSFLKHAITTYLFCTYPDAHEGRLSYMRSKKVSNCNLYRLGKKKGLPSRMVVSIFDPPVNWLPPGYVVNQDKSSTDKWDSDENKDLANGKASDDEDEDDDDEPEEAEVEPSKEDVNVEDDLEYYYEHIRFIDSMLIGSGAFGKKISLQPTDPGYEWKAPKKAHNSHFSPDGGADEFDYSSWDAMCYLDPSKAGEEDDFVVGFWNPSEENCGTDIGKQSISYDLHTEQCIADKSIADCVEALLGCYLTSCGERAAQLFLCSLGLKVLPPEKQSSGGSAELQYGWLKIPPRCMFEHPDAERTLNHLISGFLNFESKINYTFKNKAYLLQAFTHASYHYNTITDCYQRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDFVQFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLETVWQVYYPMMRPLIEKFSANVPRSPVRELLEMEPETAKFSPAERTYDGKVRVTVEVVGKGKFKGVGRSYRIAKSAAARRALRSLKANQPQVQNN"

     misc_feature    426..1007
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="DEXH-box helicase domain of endoribonuclease Dicer;
                     Region: DEXHc_dicer; cd18034"
                     /db_xref="CDD:350792"
     misc_feature    order(426..437,444..446,495..518,630..632,816..818,
                     909..911)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:350792"
     misc_feature    order(594..599,666..671,741..743,747..752,759..761,
                     834..842)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="nucleic acid binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:350792"
     misc_feature    1101..1385
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="Partner-binding domain of the endoribonuclease
                     Dicer; Region: Dicer_PBD; cd15903"
                     /db_xref="CDD:277191"
     misc_feature    order(1116..1121,1128..1130,1134..1139,1314..1319,
                     1326..1331,1338..1340,1347..1352,1359..1361)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="Trbp binding interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:277191"
     misc_feature    1404..1982
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="C-terminal helicase domain of the endoribonuclease
                     Dicer; Region: SF2_C_dicer; cd18802"
                     /db_xref="CDD:350189"
     misc_feature    order(1635..1643,1851..1853,1908..1910,1914..1916)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:350189"
     misc_feature    order(1863..1865,1869..1871,1944..1946,1950..1952)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:350189"
     misc_feature    2178..2444
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="Dicer dimerization domain; Region: Dicer_dimer;
                     pfam03368"
                     /db_xref="CDD:460900"
     misc_feature    2946..3314
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="PAZ domain, dicer_like subfamily. Dicer is an RNAse
                     involved in cleaving dsRNA in the RNA interference
                     pathway. It generates dsRNAs which are approximately 20 bp
                     long (siRNAs), which in turn target hydrolysis of
                     homologous RNAs. PAZ domains are named...; Region:
                     PAZ_dicer_like; cd02843"
                     /db_xref="CDD:239209"
     misc_feature    order(3135..3137,3174..3176,3192..3194,3204..3206,
                     3258..3260,3282..3284,3288..3290)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="nucleic acid-binding interface [nucleotide
                     binding]; other site"
                     /db_xref="CDD:239209"
     misc_feature    4164..>4439
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="Ribonuclease III family; Region: RIBOc; smart00535"
                     /db_xref="CDD:197778"
     misc_feature    order(4215..4220,4227..4232,4239..4241,4248..4253,
                     4260..4265,4269..4277,4305..4307)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238333"
     misc_feature    5205..5699
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="Ribonuclease III C terminal domain. This group
                     consists of eukaryotic, bacterial and archeal ribonuclease
                     III (RNAse III) proteins. RNAse III is a double stranded
                     RNA-specific endonuclease. Prokaryotic RNAse III is
                     important in post-transcriptional...; Region: RIBOc;
                     cd00593"
                     /db_xref="CDD:238333"
     misc_feature    order(5265..5270,5277..5282,5289..5291,5298..5303,
                     5310..5315,5319..5327,5355..5357,5619..5621,5652..5654)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238333"
     misc_feature    order(5265..5267,5274..5276,5286..5288,5589..5591,
                     5598..5600)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="active site"
                     /db_xref="CDD:238333"
     misc_feature    order(5274..5276,5589..5591,5598..5600)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:238333"
     misc_feature    5712..5900
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="double-stranded RNA binding motif of
                     endoribonuclease Dicer and similar proteins; Region:
                     DSRM_DICER; cd10843"
                     /db_xref="CDD:380680"
     misc_feature    order(5712..5717,5721..5726,5733..5738,5745..5750,
                     5760..5762,5775..5783,5787..5789,5793..5795,5844..5855,
                     5862..5864)
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /note="putative RNA binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:380680"
     polyA_site      9749
                     /gene="dicer1"
                     /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

caacagcagcagcagcaggagggaatggggagagaggggctccgcaccgtttaacaagacactcttcagcacaacacgaccattaaaacaattcaccatcgaacatcgaaggaatactgtctcaggccccctcccccatctgcagctttgagagtaactcaaggggagaaaagaatgagctgattttaagagctcagataatgatgcccagaataagtgcggcctggtcacagagcaaagtggggaacgcacacgcttgagcattagatggccatgatgcaatgagataaacactggatgactggaggtctcctgcttatcagtctctaagcatggctggcctacagctggtgacccctgcctcctcacccatggggcccttctttggtctcccgtggcaacaggaagctatccatgacaacatatatacaccaaggaaatatcaggttgaacttcttgaagcagctcttgaacataatactatagtctgcttaaatactggctcagggaagacctttatcgcagtgctcctaatcaaagaactctcccaccaaattcgtggcgagaatgggaagaggacagttttcctggtgaatgcagcgtcatctgtggctcagcaagcatctactgtaagaacacactctgatctccaagtaggcgactatatgtcagaggacatgacatcatggcccgaggagatgtggaacagagagatgatagagaatcaggtgctggtgatgacgtgccacatcttcctgcatgttttaaagaatggagtcttgccactatcaaagatcaacctgctagtttttgacgaatgccaccttgcaatcactggccatccttatcgggaaataatgaagatttgtgaaggttgccccagctgtcctcgcattttgggtctcactgcttccattttaaatggcaaatgtgacccttgtgatttggaggagaaaattcagaacctggagaagattcttcagagcaatgcagaaactgccactgatcttgtggtgctggataggtatgcgtcgcagccgcgtgaggaggtgctggattgtggacagtaccaagatcagagtgggctctcggagaggcttttaaatgagctggacgaagccctcagctttctaaacgattgcaacttgtctgtacatagagaagatagagaccccacgtttatctccaaacaggtgctgaatgactgtcgtgctgtgctgactgtgctgggcccttggtgtgcagataaagctgcaggaatcatggttcgggagctgcagaaatatattaaacatgaacaggaagagctaaaccgcaagttcctgttgttcactgacaccatcctgaggaaaatccatgccttatgtgaggagcatttttccccagcttccctcgacctgaagtttgtcactcccaaggtcatcagactcttggaaattctccacgagtacaagcctttcgaacggcagcagtttgagagtgtggagtggtacaacaatcgcaatcaggacaattatgtttcttggagcgattctgaagatgatgatgaggacgaagaggcggaggcaaaggagaaaaccgaagcaaattttccctcgccgttcacaaatatcctctgtggaatcatctttgtggaaaggcgatatacagcggttgttttaaacagacttattaaggaggcaggaaagcaagacccagagctggcttacatcagtagcaacttcatcacagggcacagcatcggcaagaaccagcctcgcaacaagcagatggaggtggagttcagaaaacaagaggaagtcttgaggaaattcagagcccatgaaaccaacttgctcattgcaaccagcattgtggaggaaggcgtcgatatcccaaagtgcaatttggtcgttcggtttgacctgccgacagagtaccggtcgtacgtgcaatccaaaggtcgagcccgtgctccagtctccaactacatcatgctagcagacagcgaacggactaaaaccttccaagaagacctcaagacctacaaggccatagagaagatcctccgaaataagtgctcgaagtcggctgaatgcaatgattttgagctggagcctgtgaccgatgatgacaatgttctcccaccgtacgtcctgcgctcagaggacggcgggcctcgtgtcaccatgaacactgccattgggcacgtcaaccgatattgtgcgcgcttgcccagtgatccgttcactcatctcgctccgaagtgtaaaactgtagagatgaacaccggagggtatcgatccacactcttcctacctatcaactcaccactcagagttcctgtcaccgggccagtaatgaattgtgcaagactggctgagaaagctgtcgctcttctctgttgtgaaaaactccacaaaattggtgaactggatgatcatctgatgcctgtgggaaaggaaactgtgaagtatgaggaggagctggacctgcatgatgaagaggagacaagcgtgccaggaagaccaggctccactaaacggagacagtgctacccaaaagccataccagagtgtctgcggggttgttaccctgtgccagagcagccttgctatctttacgttattgggatggtcctcaccacccctctacctgacgaactcaacttccggcggaggaagctgtatccaccagaggacacaacccgatgttttggcattctgacagctaaaccaatacctcggatccctcatttccctgtgtacactcgttctggtgaggtgaccatctccattgagctgcagaagtcgggctttagtctaagtgcggagcagctggagctgatcacacgtctgcatcagtacatcttctcccacatcctccgtctggaaaagccagcactagagtttaagcctgtagaggcagattctgcctactgtgttctacctctcaacatcgttgaggattccaatactttggatctggatttcaagttcatggaggatattgaaaagtctgaagcacgcattggcattccaaacactcagtacaccaagcaaaacccattcatcttcaaattggaggactaccaggatgctgtcatcattccaaggtatcgtaattttgaccagccgcatcggttctacgtggctgacgtttacacagacctcaccccgctcagtaaattcccctctccagagtacgagacttttgccgaatactataaaaccaagtacaacctggacctgtcaaatgttaatcagcccctactggatgtggaccacacatcttcaagattgaatcttttaactccccggcaccttaatcaaaaggggaaagcccttcctctcagcagtgcggagaagagaaaggccaagtgggaaagcctacaaaacaaacagattttagttccggagctctgtgccattcaccccatcccagcctctttgtggaggaaagccgtctgccttcccagcattctctacagacttcactgccttctgacggccgaagagctgcggtctcagacagccatcgatgctggcgtaggggctcagaccttgcctcctgatttcaggtatcctaatttggatttcggatggaagaaatccatcgacagcaagtctttcatctcctgccccagtgcatgtatggaagaagacgacgatcactgtaaactcggcacaagctccgattcaaaccacactgcccccgagagctgcagtatggaggtctcccagcctccagacggcgctctcaacacaccagatgaaaagctagaaaccctcgctctccctgtgactgatctaaacaaagactgtttcccaaacctcccaaacggcactcaggccgacagcgacgacctccctcacagaagtgacgtttgccaatgctctcagctgggccctctggagagagacctatcaacacaaaccactacctcagtttcagtgcggccctctccagctggagaaccacagccatggcccagcgatgaatgtacaggcaggagctcagatctctgcgacccacatgtgaagaaacctacctcaaagcattgccctaaatcggagacggcgactagcaccgcagcaccttcagaaacgtcatcagaggactgtagatcagcctgcgctggtccagcctgggattcgcccaaaaccctgggcccgaaccccgggctcatcctgcaggccctgactctctccaacgccagtgacggcttcaatctggaacgcctggagatgctgggcgactctttcctgaaacacgccatcaccacatacctgttctgcacttaccctgacgcccacgagggcagactgtcctacatgagaagcaagaaggtcagcaactgtaacctgtatcggctggggaagaagaagggtcttccgagtcgaatggtggtgtccatctttgacccgccggtaaactggcttcctccaggctacgtcgtgaatcaggacaaaagcagcacagacaagtgggactcagatgagaataaagatttagcgaatggaaaagccagcgatgacgaagacgaggatgacgatgatgagccggaagaagcagaggtcgagccatctaaagaagatgtaaatgttgaagatgacctggagtattattacgaacacatccgcttcatcgacagcatgttaatcggctctggcgctttcggcaagaagatctccctccagcccacagaccccggctacgaatggaaagctcccaaaaaagcccacaactcccacttctcgccagacgggggtgctgacgagttcgattacagctcctgggacgccatgtgttacctggaccccagtaaagcaggtgaggaggacgattttgtggtgggcttctggaatccctctgaggaaaactgcggcacagacatcgggaaacagtccatctcttatgaccttcacacggagcagtgcatcgcagataagagcatagcggactgtgtggaggctctgctgggctgctatctgaccagctgtggtgagcgagcggctcag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