ver.2
Home
|
Help
|
Advanced search
Previous release (v1)
2024-04-20 20:22:35, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001160028 3062 bp mRNA linear VRT 24-DEC-2022 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 IHT, Shi Y, Li J, Wang X, Chan MTV and Cheng CHK. 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 MO, Reig-Viader R, Gou G, Goulding D, Izquierdo A, Choudhary JS, Emes RD and Grant SG. 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 CC, Silipino L, Hadi S, Weiss-Gayet M, Barras E, Schmid CD, Ait-Lounis A, Barnes A, Song Y, Eisenman DJ, Eliyahu E, Frolenkov GI, Strome SE, Durand B, Zaghloul NA, Jones SM, 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 DW, Patnode H, Mishima Y, Cheloufi S, Ma E, Mane S, Hannon GJ, Lawson ND, Wolfe SA and Giraldez AJ. 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:435368"
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:430160"
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]