2024-05-17 02:32:58, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_021467115 6746 bp mRNA linear VRT 15-JUN-2017 DEFINITION PREDICTED: Danio rerio dicer 1, ribonuclease type III (dicer1), transcript variant X4, mRNA. ACCESSION XM_021467115 VERSION XM_021467115.1 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_007128.7) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Version :: Danio rerio Annotation Release 106 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 7.4 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..6746 /organism="Danio rerio" /mol_type="mRNA" /strain="Tuebingen" /db_xref="taxon:7955" /chromosome="17" gene 1..6746 /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, 12 ESTs, 10 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 8 samples with support for all annotated introns" /db_xref="GeneID:324724" /db_xref="ZFIN:ZDB-GENE-030131-3445" CDS 458..6055 /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /codon_start=1 /product="endoribonuclease Dicer isoform X1" /protein_id="XP_021322790.1" /db_xref="GeneID:324724" /db_xref="ZFIN:ZDB-GENE-030131-3445" /translation="
MAGLQLVTPASSPMGPFFGLPWQQEAIHDNIYTPRKYQVELLEAALEHNTIVCLNTGSGKTFIAVLLIKELSHQIRGENGKRTVFLVNAASSVAQQASTVRTHSDLQVGDYMSEDMTSWPEEMWNREMIENQVLVMTCHIFLHVLKNGVLPLSKINLLVFDECHLAITGHPYREIMKICEGCPSCPRILGLTASILNGKCDPCDLEEKIQNLEKILQSNAETATDLVVLDRYASQPREEVLDCGQYQDQSGLSERLLNELDEALNFLNDCNLSVHREDRDPTFISKQVLNDCRAVLTVLGPWCADKAAGIMVRELQKYIKHEQEELNRKFLLFTDTILRKIHALCEEHFSPASLDLKFVTPKVIRLLEILHEYKPFERQQFESVEWYNNRNQDNYVSWSDSEDDDEDEEAEAKEKTEANFPSPFTNILCGIIFVERRYTAVVLNRLIKEAGKQDPELAYISSNFITGHSIGKNQPRNKQMEVEFRKQEEVLRKFRAHETNLLIATSIVEEGVDIPKCNLVVRFDLPTEYRSYVQSKGRARAPVSNYIMLADSERTKTFQEDLKTYKAIEKILRNKCSKSAECNDFELEPVTDDDNVLPPYVLRSEDGGPRVTMNTAIGHVNRYCARLPSDPFTHLAPKCKTVEMNTGGYRSTLFLPINSPLRVPVTGPVMNCARLAEKAVALLCCEKLHKIGELDDHLMPVGKETVKYEEELDLHDEEETSVPGRPGSTKRRQCSPKAIPECLRGCYPVPEQPCYLYVIGMVLTTPLPDELNFRRRKLYPPEDTTRCFGILTAKPIPRIPHFPVYTRSGEVTISIELQKSGFSLSAEQLELITRLHQYIFSHILRLEKPALEFKPVEADSAYCVLPLNIVEDSNTLDLDFKFMEDIEKSEARIGIPNTQYTKQNPFIFKLEDYQDAVIIPRYRNFDQPHRFYVADVYTDLTPLSKFPSPEYETFAEYYKTKYNLDLSNVNQPLLDVDHTSSRLNLLTPRHLNQKGKALPLSSAEKRKAKWESLQNKQILVPELCAIHPIPASLWRKAVCLPSILYRLHCLLTAEELRSQTAIDAGVGAQTLPPDFRYPNLDFGWKKSIDSKSFISCPSACMEEDDDHCKLGTSSDSNHTAPESCSMEVSQPPEGAPNTPDEKLETLTLPVTDLNKDCFPNLPNGTQADSDDLPHRSDVCQCSQLGPLERDLSTQTTTSVSVRPSPAGEPQPWPSDECTGRSSDLCDPHVKKPTSKHCPKSETATSTPAPSETSSEDCRSACAGPAWDSPKTLGPNPGLILQALTLSNASDGFNLERLEMLGDSFLKHAITTYLFCTYPDAHEGRLSYMRSKKVSNCNLYRLGKKKGLPSRMVVSIFDPPVNWLPPGYVVNQDKSSTDKWDSDENKDLANGKASDDEDEDDDDEPEEAEVEPSKEDVNVEDDLEYYYEHIRFIDSMLIGSGAFGKKISLQPTDPGYEWKAPKKAHNSHFSPDGGADEFDYSSWDAMCYLDPSKAGEEDDFVVGFWNPSEENCGTDIGKQSISYDLHTEQCIADKSIADCVEALLGCYLTSCGERAAQLFLCSLGLKVLPPEKQSSGGSAELQYGWLKIPPRCMFEHPDAERTLNHLISGFLNFESKINYTFKNKAYLLQAFTHASYHYNTITDCYQRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDFVQFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLETVWQVYYPMMRPLIEKFSANVPRSPVRELLEMEPETAKFSPAERTYDGKVRVTVEVVGKGKFKGVGRSYRIAKSAAARRALRSLKANQPQVQNN"
misc_feature 551..1132 /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(551..562,569..571,620..643,755..757,941..943, 1034..1036) /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(719..724,791..796,866..868,872..877,884..886, 959..967) /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 1226..1510 /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(1241..1246,1253..1255,1259..1264,1439..1444, 1451..1456,1463..1465,1472..1477,1484..1486) /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /note="Trbp binding interface [polypeptide binding]; other site" /db_xref="CDD:277191" misc_feature 1529..2107 /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(1760..1768,1976..1978,2033..2035,2039..2041) /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:350189" misc_feature order(1988..1990,1994..1996,2069..2071,2075..2077) /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:350189" misc_feature 2303..2569 /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /note="Dicer dimerization domain; Region: Dicer_dimer; pfam03368" /db_xref="CDD:427264" misc_feature 3071..3439 /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(3260..3262,3299..3301,3317..3319,3329..3331, 3383..3385,3407..3409,3413..3415) /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 4289..>4564 /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /note="Ribonuclease III family; Region: RIBOc; smart00535" /db_xref="CDD:197778" misc_feature order(4340..4345,4352..4357,4364..4366,4373..4378, 4385..4390,4394..4402,4430..4432) /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238333" misc_feature 5282..6040 /gene="dicer1" /gene_synonym="fc39d11; fc74b05; wu:fc39d11; wu:fc74b05" /note="dsRNA-specific ribonuclease [Transcription]; Region: Rnc; COG0571" /db_xref="CDD:223644" ORIGIN
cgttgtttgcagtagcgggcttcacaggcgtgcagtagcctgacaacagcagcagcagcagcaggagggaatgggtagagaggggctccgcaccgtttaacaagacactcttcagcacaacacgaccattaaaacaattcaccatcgaacatcgaaggaatactgtctcaggccccctcccccatctgcagctttgagagtaactcaaggggagaaaagaatgagctgattttaagagctcagataatgatgcccagaataagtgcggcctggtcacagagcaaagtggggaacgcacacgctgacacaatagcattgtgacacgcttgctgatttcactcacatccgactgatctgatgttacgtggtctgtctccggcagtgagcattagatggccatgatgcaatgagataaacactggatgactggaggtctcctgcttatcagtctctaagcatggctggcctacagctggtgacccctgcctcctcacccatggggcccttctttggtctcccgtggcaacaggaagctatccatgacaacatatacacaccaaggaaatatcaggttgaacttcttgaagcagctcttgaacataatactatagtctgcttaaatactggctcagggaagacctttatcgcagtgctcctaatcaaagaactctcccaccaaattcgtggcgagaatgggaagaggacagttttcctggtgaatgcagcgtcatctgtggctcagcaagcatctactgtaagaacacactctgatctccaagtaggcgactatatgtcagaggacatgacatcatggcccgaggagatgtggaacagagagatgatagagaatcaggtgctggtgatgacgtgccacatcttcctgcatgttttaaagaatggagtcttgccactatcaaagatcaacctgctggtttttgacgaatgccaccttgcaatcactggccatccttatcgggaaataatgaagatttgtgaaggttgccccagctgtcctcgcattttgggtctcactgcttccattttaaatggcaaatgtgacccttgtgatttggaggagaaaattcagaacctggagaagattcttcagagcaatgcagaaactgccactgatcttgtggtgctggataggtatgcgtcgcagccgcgtgaggaggtgctggattgtggacagtaccaagatcagagtgggctctcggagaggcttttaaatgagctggacgaagccctcaattttctaaacgattgcaacttgtctgtacatagagaagatagagaccccacgtttatctccaaacaggtgctgaatgactgtcgtgctgtgttgactgtgctgggcccttggtgtgcggataaagctgcaggaatcatggttcgggagctgcagaaatatattaaacatgaacaggaagagctaaaccgcaagttcctgttgttcaccgacaccatcctgaggaaaatccatgccttatgtgaggagcatttttccccagcttccctcgacctgaagtttgtcactcccaaggtcatcagacttttggagattctccacgagtacaagcctttcgaacggcagcagtttgagagtgtggagtggtacaacaatcgcaatcaggacaattatgtttcttggagtgattctgaagatgatgatgaggacgaagaggcggaggcaaaggagaaaaccgaagcaaattttccctcgccgttcacaaatatcctctgtggaatcatctttgtggaaaggcgatatacagcggttgttttaaacagacttattaaggaggcaggaaagcaagacccagagctggcttacatcagtagcaacttcatcacagggcacagcatcggcaagaaccagcctcgcaacaagcagatggaggtggagttcagaaaacaagaggaagtcttgaggaaattcagagcccatgaaaccaacttgctcattgcaaccagcattgtggaggaaggcgtcgatatcccaaagtgcaatttggtcgttcggtttgacctgccgacagagtaccggtcgtacgtgcaatccaaaggtcgagcccgtgctccagtctccaactacatcatgctagcagacagcgaacggactaaaaccttccaagaagacctcaagacctacaaggccatagagaagatcctccgaaataagtgctcgaagtcggctgaatgcaatgattttgagctggagcctgtgaccgatgacgacaatgttctcccaccgtacgtcctgcgctcagaggacggcgggcctcgtgtcaccatgaacactgccattgggcacgtcaaccgatattgtgcgcgcttgcccagtgatccgttcactcatctcgctccgaagtgtaaaactgtagagatgaacaccggagggtatcgatccacactcttcctacctatcaactcaccactcagagttcctgtcaccgggccagtaatgaattgtgcaagactggctgagaaagctgtcgctcttctctgttgtgaaaaactccacaaaattggtgaactggatgatcatctgatgcctgtgggaaaggaaactgtgaagtatgaggaggagctggacctgcatgatgaagaggagacaagcgtgccaggaagaccaggctccactaaacggagacagtgctccccaaaagccataccagagtgtctgcggggttgttaccctgtgccagagcagccttgctacctttacgttattgggatggtcctcaccacccctctacctgacgaactcaacttccggcggaggaagctgtatccaccagaggacacaacccgatgttttggcattctgacagctaaaccaataccccggatccctcatttccctgtgtacactcgttctggtgaggtgaccatctccattgagctgcagaagtcgggctttagtctaagtgcggagcagctggagctgatcacacgtctgcatcagtacatcttctcccacatcctccgtctggaaaagccagcactagagtttaagcctgtagaggcagattctgcctactgtgttctacctctcaacatcgttgaggattccaatactttggatctggatttcaagttcatggaggatattgaaaagtctgaagcacgcattggcattccaaacactcagtacaccaagcaaaacccattcatcttcaaattggaggactaccaggatgctgtcatcattccaaggtatcgtaattttgaccagccgcatcggttctacgtggctgacgtttacacagacctcaccccgctcagtaaattcccctctccagagtacgagacttttgccgaatactataaaaccaagtacaacctggacctgtcaaatgttaatcagcccctactggatgtggaccacacatcttcaagattgaatcttttaactccccggcaccttaatcaaaaggggaaagcccttcctctcagcagtgcggagaagagaaaggccaagtgggaaagcctacaaaacaaacagattttagttccggagctctgtgccattcaccccatcccagcctctttgtggaggaaagccgtctgccttcccagcattctctatagacttcactgccttctgacggccgaagagctgcggtctcagacagccatcgatgctggcgtaggggctcagaccttgcctcctgatttcaggtatcctaatttggatttcggatggaagaaatccatcgacagcaagtctttcatctcctgccccagtgcatgtatggaagaagacgacgatcactgtaaactcggcacaagctccgattcaaaccacactgcccccgagagctgcagtatggaggtctcccagcctccagaaggcgctcccaacacaccagatgaaaagctagaaaccctcactctccctgtgactgatctaaacaaagactgtttcccaaacctcccaaacggcactcaggccgacagcgacgacctccctcacagaagtgacgtttgccaatgctctcagctgggccctctggagagagacctatcaacacaaaccactacctcagtttcagtgcggccctctccagctggagaaccacagccatggcccagcgatgaatgtacaggcaggagctcggatctctgcgacccacatgtgaagaaacctacctcaaagcattgccctaaatcggagacggcgactagcaccccagcaccttcagaaacgtcatcagaggactgtagatcagcctgcgctggtccagcctgggattcgcccaaaaccctgggcccgaaccccgggctcatcctgcaggccctgactctctccaacgccagtgacggcttcaatctggaacgcctggagatgctgggcgactccttcctgaaacacgccatcaccacatacctgttctgcacttaccctgacgcccacgagggcagactgtcctacatgagaagcaagaaggtcagcaactgtaacctgtatcggctggggaagaagaagggtcttccgagtcgaatggtggtgtccatctttgacccgccggtaaactggcttcctccaggctacgtcgtgaatcaggacaaaagcagcacagacaagtgggactcagatgagaataaagatttagcgaatggaaaagccagcgatgacgaagacgaggatgacgatgatgagccggaagaagcagaggtcgagccatctaaagaagatgtaaatgttgaagacgacctggagtattattacgaacacatccgcttcatcgacagcatgttaatcggctctggcgctttcggcaagaagatctccctccagcccacagaccccggctacgaatggaaagctcctaaaaaagcccacaactcccacttctcgccagacgggggtgctgacgagttcgattacagctcctgggacgccatgtgttacctggaccccagtaaagcaggtgaggaggacgatttcgtggtgggcttctggaatccctctgaggaaaactgcggcacggacatcgggaaacagtccatctcttatgaccttcacacggagcagtgcatcgcagataagagcatagcggactgtgtggaggctctgctgggctgctatctgaccagctgtggtgagcgagcggctcagctgtttctctgctctctgggcctgaaggtgctaccaccggagaagcagagttcgggaggctctgccgagctccagtacggctggctgaagatcccaccacgctgcatgttcgaacatcctgacgctgaacgcacgctcaaccacctcatctctggcttcctgaacttcgagagcaagatcaactacacgtttaagaacaaggcgtacctgctgcaggccttcacacacgcctcgtatcattacaacaccattacagattgttatcagcggttggagtttcttggtgatgcaattctagactacctcataaccaagcacctttatgaagacccccggcagcactcgcccggcgtgctgaccgacctgcgctctgcacttgtcaacaacaccatattcgcttccctggctgtcaagtatgattaccacaagtacttcaaagctgtctcgccagaactcttccacgtgatcgacgattttgtgcaatttcaactggagaagaatgaaatgcaaggaatggattcagagcttcgccgatcggaggaagatgaagagaaagaggaagacattgaagtccccaaagcaatgggagacatctttgaatcgctagctggtgcaatttacatggatagcgggatgtcacttgagacagtttggcaagtgtattatccaatgatgaggccgctcatagaaaaattctccgctaatgtccctcgatccccagtgcgtgaactcctggagatggagccagagacagctaagttcagccctgcggaaagaacttatgatggaaaggtacgggtgacggtggaagtcgtgggcaaaggcaagttcaaaggcgtaggacgcagctaccggatagccaagtcagcagccgcccgccgagccctgcgcagtctcaaagccaaccaacctcaggtccaaaacaactgagacacccggtcaaatacgccgcaatgaaccaatccagtcacgggatttcagctcaattcacatggggttcatatttcatgttattctttacgtgcgcaaacacaatctttttttctccccagctttgttggatcacgagtgcttttcatgtatcgcaagtgttaagaaaaaggtcaggtcttcttacacccacaatttccctatttttattaacatttaaaaaaagaaagatatatgctctgcttcgtagtagtggttaaaatagctaaagcttataggtagtattacagtgtacatagttcataactccaagctatcaactaagtaagagaaataaaaaaaaagtgacatacaaacacaaaattcctcaatctgtgcactagtgccaggaagggcacgtaagatggtgttggtattggaagtgtttttatcttgagatgactttactctcaatcaaacttgcacttctgtagggtccgttttattaggtagtttttttttttccgccagatcacagcggaatcgttttagatctatattgtattgaaagtgaaaggcccttgcatccttgagacagataggaatttgacattcccgattactgtaatcagcatagttgtgaacggcacttgaggatgcatgttcgtgtagccaaccggatgggttgtatagacgtcataaagctacgtta
//
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@meso_cacase at
DBCLS
This page is licensed under a
Creative Commons Attribution 4.0 International License (CC BY 4.0).
If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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