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Previous release (v1)
2024-11-01 14:22:29, GGRNA.v2 : RefSeq release 226 (Sep, 2024)
LOCUS NM_001160028 3062 bp mRNA linear VRT 04-APR-2024
DEFINITION Danio rerio argonaute RISC catalytic component 3b (ago3b), mRNA.
ACCESSION NM_001160028 XM_691471
VERSION NM_001160028.1
KEYWORDS RefSeq.
SOURCE Danio rerio (zebrafish)
ORGANISM Danio rerio
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE 1 (bases 1 to 3062)
AUTHORS Raman,R., Ryon,M. and Jagadeeswaran,P.
TITLE RNaseH-mediated simultaneous piggyback knockdown of multiple genes
in adult zebrafish
JOURNAL Sci Rep 10 (1), 20187 (2020)
PUBMED 33214638
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 3062)
AUTHORS Liu,Y., Zhu,Z., Ho,I.H.T., Shi,Y., Li,J., Wang,X., Chan,M.T.V. and
Cheng,C.H.K.
TITLE Genetic Deletion of miR-430 Disrupts Maternal-Zygotic Transition
and Embryonic Body Plan
JOURNAL Front Genet 11, 853 (2020)
PUBMED 32849832
REMARK Publication Status: Online-Only
REFERENCE 3 (bases 1 to 3062)
AUTHORS Qiu,W., Liu,S., Yang,F., Dong,P., Yang,M., Wong,M. and Zheng,C.
TITLE Metabolism disruption analysis of zebrafish larvae in response to
BPA and BPA analogs based on RNA-Seq technique
JOURNAL Ecotoxicol Environ Saf 174, 181-188 (2019)
PUBMED 30826544
REFERENCE 4 (bases 1 to 3062)
AUTHORS Bayes,A., Collins,M.O., Reig-Viader,R., Gou,G., Goulding,D.,
Izquierdo,A., Choudhary,J.S., Emes,R.D. and Grant,S.G.
TITLE Evolution of complexity in the zebrafish synapse proteome
JOURNAL Nat Commun 8, 14613 (2017)
PUBMED 28252024
REMARK Publication Status: Online-Only
REFERENCE 5 (bases 1 to 3062)
AUTHORS Katz,S., Cussigh,D., Urban,N., Blomfield,I., Guillemot,F.,
Bally-Cuif,L. and Coolen,M.
TITLE A Nuclear Role for miR-9 and Argonaute Proteins in Balancing
Quiescent and Activated Neural Stem Cell States
JOURNAL Cell Rep 17 (5), 1383-1398 (2016)
PUBMED 27783951
REFERENCE 6 (bases 1 to 3062)
AUTHORS Elkon,R., Milon,B., Morrison,L., Shah,M., Vijayakumar,S.,
Racherla,M., Leitch,C.C., Silipino,L., Hadi,S., Weiss-Gayet,M.,
Barras,E., Schmid,C.D., Ait-Lounis,A., Barnes,A., Song,Y.,
Eisenman,D.J., Eliyahu,E., Frolenkov,G.I., Strome,S.E., Durand,B.,
Zaghloul,N.A., Jones,S.M., Reith,W. and Hertzano,R.
TITLE RFX transcription factors are essential for hearing in mice
JOURNAL Nat Commun 6, 8549 (2015)
PUBMED 26469318
REMARK Publication Status: Online-Only
REFERENCE 7 (bases 1 to 3062)
AUTHORS McFarlane,L., Svingen,T., Braasch,I., Koopman,P., Schartl,M. and
Wilhelm,D.
TITLE Expansion of the Ago gene family in the teleost clade
JOURNAL Dev Genes Evol 221 (2), 95-104 (2011)
PUBMED 21556854
REFERENCE 8 (bases 1 to 3062)
AUTHORS Cifuentes,D., Xue,H., Taylor,D.W., Patnode,H., Mishima,Y.,
Cheloufi,S., Ma,E., Mane,S., Hannon,G.J., Lawson,N.D., Wolfe,S.A.
and Giraldez,A.J.
TITLE A novel miRNA processing pathway independent of Dicer requires
Argonaute2 catalytic activity
JOURNAL Science 328 (5986), 1694-1698 (2010)
PUBMED 20448148
COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final
NCBI review. The reference sequence was derived from BX005424.10.
On May 10, 2009 this sequence version replaced XM_691471.3.
##Evidence-Data-START##
Transcript exon combination :: GDQH01005553.1 [ECO:0000332]
RNAseq introns :: single sample supports all introns
SAMEA2168446, SAMEA2168447
[ECO:0000348]
##Evidence-Data-END##
PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP
1-498 BX005424.10 180832-181329 c
499-670 BX005424.10 175486-175657 c
671-791 BX005424.10 175200-175320 c
792-1000 BX005424.10 173881-174089 c
1001-1137 BX005424.10 173524-173660 c
1138-1272 BX005424.10 171166-171300 c
1273-1360 BX005424.10 170266-170353 c
1361-1508 BX005424.10 169625-169772 c
1509-1628 BX005424.10 168529-168648 c
1629-1751 BX005424.10 168299-168421 c
1752-1885 BX005424.10 165633-165766 c
1886-2070 BX005424.10 165361-165545 c
2071-2230 BX005424.10 164644-164803 c
2231-2321 BX005424.10 164459-164549 c
2322-2516 BX005424.10 161421-161615 c
2517-2651 BX005424.10 160161-160295 c
2652-2753 BX005424.10 159971-160072 c
2754-2953 BX005424.10 159101-159300 c
2954-3062 BX005424.10 157442-157550 c
FEATURES Location/Qualifiers
source 1..3062
/organism="Danio rerio"
/mol_type="mRNA"
/strain="Tuebingen"
/db_xref="taxon:7955"
/chromosome="19"
/map="19"
gene 1..3062
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="argonaute RISC catalytic component 3b"
/db_xref="GeneID:568159"
/db_xref="ZFIN:ZDB-GENE-060503-452"
exon 1..498
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
misc_feature 477..479
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="upstream in-frame stop codon"
CDS 480..3062
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/EC_number="3.1.26.n2"
/note="argonaute 3b; eukaryotic translation initiation
factor 2C, 3b; argonaute RISC catalytic component 3"
/codon_start=1
/product="protein argonaute-3"
/protein_id="NP_001153500.1"
/db_xref="GeneID:568159"
/db_xref="ZFIN:ZDB-GENE-060503-452"
/translation="
MEIGTTGAVGAAPQFSVPRRPGYGTMGKPIKLLANCFQVDIPKMDVYLYDVDIKPEKCPRRVNREVVDSMVQHFKVTIFGDRRPVYDGKKSLYTAQPLPVASAGVDLDVTLPGEGGKDRIFKVTIKFVSLVSWHMLHEVLTGRSTPDPLELDKPISTNPVHAVDVVLRHLPSMRYTPVGRSFFSSPEGYDHPLGGGREVWFGFHQSVRPAMWKMMLNIDVSATAFYKAQPVIQFMCEVLDIHNIDEQPRPLTDSHRVKFTKEIKGLKVEVTHCGTMRRKYRVCNVTRRPASHQTFPLQLENGQTVERTVAQYFREKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLVRSANYNSDPFVQEFQFRVRDEMAEVTGRVLPAPMLQYGGRNRTVATPSHGVWDMRGKQFHTGVEIKMWAIACFATQRQCREEVLKGFTDQLRKISKDAGMPIQGQPCFCKYAQGADNVEPMFRHLKNTYAGLQLIIVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVVKTSPQTLSNLCLKINVKLGGINNILVPHQRPSVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDAHPSRYCATVRVQRPRQEVIQDLASMVRELLIQFYKSTHYKPTRIIFYRDGVSEGQFRQVLYYELLAIREACISLEKEYQPGITYIVVQKRHHTRLFCADRAERVGRSGNIPAGTTVDTDITHPYEFDFYLCSHAGIQGTSRPSHYYVLWDDNCFTADEFQLLTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVDKEHDSAEGSHVSGQSNGRDPQALAKAVQIHHDTLRTMYFA"
misc_feature 696..980
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="N-terminal domain of argonaute; Region: ArgoN;
pfam16486"
/db_xref="CDD:465134"
misc_feature 1008..1160
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="Argonaute linker 1 domain; Region: ArgoL1;
pfam08699"
/db_xref="CDD:462567"
misc_feature 1161..1523
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="PAZ domain, argonaute_like subfamily. Argonaute is
part of the RNA-induced silencing complex (RISC), and is
an endonuclease that plays a key role in the RNA
interference pathway. The PAZ domain has been named after
the proteins Piwi,Argonaut, and Zwille; Region:
PAZ_argonaute_like; cd02846"
/db_xref="CDD:239212"
misc_feature order(1317..1319,1362..1364,1404..1406,1416..1418,
1470..1472,1491..1493,1497..1499)
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="nucleic acid-binding interface [nucleotide
binding]; other site"
/db_xref="CDD:239212"
misc_feature 1656..2933
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="PIWI domain, Argonaute-like subfamily. Argonaute is
the central component of the RNA-induced silencing complex
(RISC) and related complexes. The PIWI domain is the
C-terminal portion of Argonaute and consists of two
subdomains, one of which provides the...; Region:
Piwi_ago-like; cd04657"
/db_xref="CDD:240015"
misc_feature order(2067..2069,2079..2081,2115..2126,2133..2135,
2157..2159,2166..2168,2178..2180,2190..2192)
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="5' RNA guide strand anchoring site [active]"
/db_xref="CDD:240015"
misc_feature 2067..2180
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="propagated from UniProtKB/Swiss-Prot (A3KPK0.1);
Region: Interaction with guide RNA.
/evidence=ECO:0000250|UniProtKB:Q9H9G7"
misc_feature order(2271..2273,2277..2279,2487..2489,2901..2903)
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="active site"
/db_xref="CDD:240015"
misc_feature 2751..2894
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/note="propagated from UniProtKB/Swiss-Prot (A3KPK0.1);
Region: Interaction with guide RNA.
/evidence=ECO:0000250|UniProtKB:Q9H9G7"
exon 499..670
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 671..791
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 792..1000
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1001..1137
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1138..1272
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1273..1360
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1361..1508
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1509..1628
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1629..1751
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1752..1885
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 1886..2070
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 2071..2230
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 2231..2321
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 2322..2516
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 2517..2651
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 2652..2753
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 2754..2953
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
exon 2954..3062
/gene="ago3b"
/gene_synonym="ago3; Argonaute3; eif2c3; eif2c3b;
sb:eu332; si:dkey-3n22.3"
/inference="alignment:Splign:2.1.0"
ORIGIN
ttgatcagacgtcaacggccgcaagcgaactcgacaggaataaaagacacacgttttgactcggcgagggatgtgaagatataaacttcaaatctgagcgcatgtctttaaaatataagagcttgtcactttaaaagacacaccgcgaacgcttcgaggctcctgacaaactctgtttcgcgatggctgttagaaatatttccttcggagtcttttggcttgtcagctggtagcaattacggctctacggcatacggcgggagccacggctgaaggtcggtgctttttgcttgactgattcgctacgggctgtgtgaagctcagaacctccgagcggcccgtttcaatacccgcggtagaagccggtgtgtgtgtcggtcgttcggtttacagtggacattcagcggctttacacgaacaccgctcatctggtatttgatcccccgaagccggctagaatccggacagagacctcatgaatggaaatcggaactacaggagccgttggggctgcgccccagttctccgtacctcggaggcctggctatggcaccatggggaagcccatcaagctgctggccaactgctttcaggtggacatccccaagatggatgtctacctgtacgatgtggacatcaagccagaaaagtgcccacgacgtgttaacagggaagtggtggattctatggtgcagcactttaaagtgacaatctttggggacagaagaccagtttatgatggcaagaagagcctttacactgctcagcctttaccagtggcctcagcgggggtggacctggacgtgaccttgccaggtgaaggtgggaaggacaggattttcaaggtaaccattaaatttgtgtcgctggtcagttggcacatgctgcatgaggtcctcactggacggagcactcctgatcctctggagcttgacaagccaatcagcaccaatcccgtacacgccgtagatgttgtcctgcgccatctgccatcaatgaggtacacccctgtgggaaggtcgtttttctcctcccctgagggctatgatcacccactgggcggggggagggaggtgtggtttggcttccaccaatcagtgcgaccggctatgtggaagatgatgctcaacattgatgtgtctgccactgctttctacaaagctcagcctgtgattcagttcatgtgtgaggttcttgatatccacaacatcgatgagcagccccgtcctctcaccgattcccacagagtcaaattcaccaaagagatcaaaggtttaaaggtggaggtcacccactgtggcaccatgaggaggaagtacagggtgtgtaatgttactcgtcgaccagctagccatcagacgtttcctctacagctagaaaatggacagactgtggagagaacagtggcacaatatttcagggaaaagtacaacttacagctcaagtacccccatttgccctgcctgcaagtgggacaggagcagaaacacacatacctacctttagaggtgtgcaacatagtggcaggtcaacgctgcataaaaaaactgaccgacaaccaaacctccaccatgatcaaagccacggcccgctccgcaccggacagacaagaggagatcagcagactggtgcgcagtgccaactataattcagacccatttgtgcaagagttccagttccgtgtgcgggacgagatggcggaggtgacgggtcgagttctgcccgcccccatgctgcagtacggcggcaggaatcgtactgtagccacccctagtcatggagtgtgggacatgagaggcaagcagtttcacactggagtggagatcaagatgtgggccatcgcttgctttgccactcagagacaatgtagagaggaagttctcaagggctttacagaccagctgcggaagatctccaaggatgcagggatgcctattcaggggcagccgtgcttctgcaagtatgctcagggagcagataatgtggagcccatgttccggcacctgaagaacacttatgctggtcttcaactcatcatcgtcattctgcctggaaaaactccagtctacgccgaagtgaaacgtgttggagacactcttctgggaatggccactcagtgcgttcaggtgaagaatgtggtaaagacgtctcctcagaccctttccaacctctgtttgaagatcaacgtcaaactgggcggcattaacaacatcctagtgccccatcagcggccttctgttttccagcagccagtcatatttctgggagctgatgtcactcatccgcctgcaggagatggcaagaaaccctccattgcagctgtggtgggtagcatggatgctcaccccagcagatactgcgctaccgtccgtgtccagaggcccagacaggaggtgattcaggacctggcatccatggtgcgagagctgctcatccagttctacaagtctactcactacaaacccaccagaatcatcttctatagggatggagtgtctgaggggcagttcagacaggtgctgtattatgagctcctggccatacgtgaagcttgtatcagccttgagaaggaatatcagcctggaatcacctacatcgttgtgcagaaacgtcaccacactcgccttttctgtgctgaccgtgctgagagggttggccgcagtgggaacattccagcaggaaccacagtggacaccgacatcacccatccatacgaatttgacttttatctgtgcagtcatgctggaatacagggtacaagccgaccttcacactactacgtgctatgggacgacaactgcttcacagctgatgagttccagctcttgacgtaccagctgtgccacacatacgtgcgctgcactcgctccgtctccatccctgcaccagcctactatgctcatctggtggccttcagagcccgttatcatttagtggataaagagcatgacagtgcggaaggcagccatgtgtcgggtcagagtaacggtcgagaccctcaagccctggccaaagctgtgcagatccatcacgacactctgaggaccatgtactttgcctag
//
by
@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.
[Full Text]