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2024-03-30 00:43:41, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       NM_001271133            3109 bp    mRNA    linear   ROD 22-MAR-2023
DEFINITION  Rattus norvegicus piwi-like RNA-mediated gene silencing 4 (Piwil4),
            mRNA.
ACCESSION   NM_001271133 XM_001072752
VERSION     NM_001271133.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3109)
  AUTHORS   Henaoui IS, Jacovetti C, Guerra Mollet I, Guay C, Sobel J, Eliasson
            L and Regazzi R.
  TITLE     PIWI-interacting RNAs as novel regulators of pancreatic beta cell
            function
  JOURNAL   Diabetologia 60 (10), 1977-1986 (2017)
   PUBMED   28711973
REFERENCE   2  (bases 1 to 3109)
  AUTHORS   Sivagurunathan S, Palanisamy K, Arunachalam JP and Chidambaram S.
  TITLE     Possible role of HIWI2 in modulating tight junction proteins in
            retinal pigment epithelial cells through Akt signaling pathway
  JOURNAL   Mol Cell Biochem 427 (1-2), 145-156 (2017)
   PUBMED   28025795
REFERENCE   3  (bases 1 to 3109)
  AUTHORS   Yang Z, Chen KM, Pandey RR, Homolka D, Reuter M, Janeiro BK,
            Sachidanandam R, Fauvarque MO, McCarthy AA and Pillai RS.
  TITLE     PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from
            Cytosolic Targets of the Mouse piRNA Pathway
  JOURNAL   Mol Cell 61 (1), 138-152 (2016)
   PUBMED   26669262
REFERENCE   4  (bases 1 to 3109)
  AUTHORS   Pastor WA, Stroud H, Nee K, Liu W, Pezic D, Manakov S, Lee SA,
            Moissiard G, Zamudio N, Bourc'his D, Aravin AA, Clark AT and
            Jacobsen SE.
  TITLE     MORC1 represses transposable elements in the mouse male germline
  JOURNAL   Nat Commun 5, 5795 (2014)
   PUBMED   25503965
  REMARK    Erratum:[Nat Commun. 2015;6:7604. PMID: 26159654]
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3109)
  AUTHORS   Keam SP, Young PE, McCorkindale AL, Dang TH, Clancy JL, Humphreys
            DT, Preiss T, Hutvagner G, Martin DI, Cropley JE and Suter CM.
  TITLE     The human Piwi protein Hiwi2 associates with tRNA-derived piRNAs in
            somatic cells
  JOURNAL   Nucleic Acids Res 42 (14), 8984-8995 (2014)
   PUBMED   25038252
REFERENCE   6  (bases 1 to 3109)
  AUTHORS   Shoji M, Tanaka T, Hosokawa M, Reuter M, Stark A, Kato Y, Kondoh G,
            Okawa K, Chujo T, Suzuki T, Hata K, Martin SL, Noce T,
            Kuramochi-Miyagawa S, Nakano T, Sasaki H, Pillai RS, Nakatsuji N
            and Chuma S.
  TITLE     The TDRD9-MIWI2 complex is essential for piRNA-mediated
            retrotransposon silencing in the mouse male germline
  JOURNAL   Dev Cell 17 (6), 775-787 (2009)
   PUBMED   20059948
REFERENCE   7  (bases 1 to 3109)
  AUTHORS   Aravin AA, van der Heijden GW, Castaneda J, Vagin VV, Hannon GJ and
            Bortvin A.
  TITLE     Cytoplasmic compartmentalization of the fetal piRNA pathway in mice
  JOURNAL   PLoS Genet 5 (12), e1000764 (2009)
   PUBMED   20011505
REFERENCE   8  (bases 1 to 3109)
  AUTHORS   Aravin AA, Sachidanandam R, Bourc'his D, Schaefer C, Pezic D, Toth
            KF, Bestor T and Hannon GJ.
  TITLE     A piRNA pathway primed by individual transposons is linked to de
            novo DNA methylation in mice
  JOURNAL   Mol Cell 31 (6), 785-799 (2008)
   PUBMED   18922463
REFERENCE   9  (bases 1 to 3109)
  AUTHORS   Kuramochi-Miyagawa S, Watanabe T, Gotoh K, Totoki Y, Toyoda A,
            Ikawa M, Asada N, Kojima K, Yamaguchi Y, Ijiri TW, Hata K, Li E,
            Matsuda Y, Kimura T, Okabe M, Sakaki Y, Sasaki H and Nakano T.
  TITLE     DNA methylation of retrotransposon genes is regulated by Piwi
            family members MILI and MIWI2 in murine fetal testes
  JOURNAL   Genes Dev 22 (7), 908-917 (2008)
   PUBMED   18381894
REFERENCE   10 (bases 1 to 3109)
  AUTHORS   Carmell MA, Girard A, van de Kant HJ, Bourc'his D, Bestor TH, de
            Rooij DG and Hannon GJ.
  TITLE     MIWI2 is essential for spermatogenesis and repression of
            transposons in the mouse male germline
  JOURNAL   Dev Cell 12 (4), 503-514 (2007)
   PUBMED   17395546
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JACYVU010000189.1.
            
            On Sep 1, 2012 this sequence version replaced XM_001072752.3.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            RNAseq introns :: mixed/partial sample support SAMEA5760383,
                              SAMEA5760434 [ECO:0000350]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-103               JACYVU010000189.1  5659001-5659103     c
            104-235             JACYVU010000189.1  5655196-5655327     c
            236-450             JACYVU010000189.1  5652290-5652504     c
            451-572             JACYVU010000189.1  5647814-5647935     c
            573-653             JACYVU010000189.1  5646022-5646102     c
            654-851             JACYVU010000189.1  5642329-5642526     c
            852-963             JACYVU010000189.1  5640811-5640922     c
            964-1087            JACYVU010000189.1  5633615-5633738     c
            1088-1205           JACYVU010000189.1  5631727-5631844     c
            1206-1317           JACYVU010000189.1  5629111-5629222     c
            1318-1502           JACYVU010000189.1  5627324-5627508     c
            1503-1575           JACYVU010000189.1  5624062-5624134     c
            1576-1776           JACYVU010000189.1  5622565-5622765     c
            1777-1880           JACYVU010000189.1  5621504-5621607     c
            1881-1951           JACYVU010000189.1  5621266-5621336     c
            1952-2105           JACYVU010000189.1  5620008-5620161     c
            2106-2234           JACYVU010000189.1  5617826-5617954     c
            2235-2382           JACYVU010000189.1  5617155-5617302     c
            2383-3109           JACYVU010000189.1  5615862-5616588     c
FEATURES             Location/Qualifiers
     source          1..3109
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q12"
     gene            1..3109
                     /gene="Piwil4"
                     /note="piwi-like RNA-mediated gene silencing 4"
                     /db_xref="GeneID:689972"
                     /db_xref="RGD:1311015"
     CDS             1..2499
                     /gene="Piwil4"
                     /note="piwi-like 4"
                     /codon_start=1
                     /product="piwi-like protein 4"
                     /protein_id="NP_001258062.1"
                     /db_xref="GeneID:689972"
                     /db_xref="RGD:1311015"
                     /translation="
MSGRARVRARGITTGHSAREVERAPRDLMVSASVYELGVSSGDGRRTLVEKRGNGRQDFVDLGVCTREKLTHVKDSKTGSSGIPVQLATNLFHLDLPQDWQLYQYHVTYSPDLASRRLRTALLYNHSILSDKAKAFDGTSLFLSEKLDHKVTELTSETQRGETVKITLTLTSELFPNSPMCIQFFNVIFRKIFKKLSMYQIGRNYYKPSEPVEIPQYKLSLWPGFAISVSRFESKLLFNADVNYKVLRNETVLEFMTDLCLRTDMSCFTETCHKQLVGLIVLTRYNNKTYRIDDIDWSVKPTHAFQKRDGSETTYVDYYKQQYDITLSDLNQPVLVSLLKRRRNDNSEPQMVHLIPELCFLTGLTSQATSDFRLMKAVAEETRLSPMGRQQQLARLADDIQRNQVTRFELETWGLHFGSQLSLTGRVVPSEKILLQDHTCQPAFAADWSKDMRSCKVLSSEPLNTWLIVCCSRAEHLIESFLSCLRRVGGSTGFSVGHPKIIKVDENPAAFLRAIQLHVNPDVQLVMCILPSNQKNYYDSIKRYLSSDCPVPSQCVLTRTLNKQGMMLSVATKIAMQMTCKLGGELWAVEIPLKSLMVVGIDICRDALSKDVAVVGFVASINSRITRWFSRCVLQRTAADIADCLKVCMTGALNKWYKHNHDLPARIIAYRDGVGNGQLKAVLEYEVPQLLSSVTECGSDARSCRLSVVVVRKRCLLRLFAESGHTLQNPPLGTVVDSEATRPEWYDFYLTSQTANRGTVSPTYYNVIYDDNALKPDHMQRLTFKLCHLYYNWQGVISVPAPCQYAHKLTFLVAQSIHKEPSLELANKLFYL"
     misc_feature    745..1095
                     /gene="Piwil4"
                     /note="PAZ domain, Piwi_like subfamily. In multi-cellular
                     organisms, the Piwi protein appears to be essential for
                     the maintenance of germline stem cells. In the Drosophila
                     male germline, Piwi was shown to be involved in the
                     silencing of retrotransposons in the...; Region:
                     PAZ_piwi_like; cd02845"
                     /db_xref="CDD:239211"
     misc_feature    order(880..882,919..921,943..945,955..957,1009..1011,
                     1054..1056,1060..1062)
                     /gene="Piwil4"
                     /note="nucleic acid-binding interface [nucleotide
                     binding]; other site"
                     /db_xref="CDD:239211"
     misc_feature    1117..2445
                     /gene="Piwil4"
                     /note="PIWI domain, Piwi-like subfamily found in
                     eukaryotes. This domain is found in Piwi and closely
                     related proteins, where it is believed to perform a
                     crucial role in germline cells, via RNA silencing. RNA
                     silencing refers to a group of related...; Region:
                     Piwi_piwi-like_Euk; cd04658"
                     /db_xref="CDD:240016"
     misc_feature    order(1612..1614,1624..1626,1660..1671,1678..1680,
                     1708..1710,1717..1719,1729..1731,1741..1743)
                     /gene="Piwil4"
                     /note="5' RNA guide strand anchoring site [active]"
                     /db_xref="CDD:240016"
     misc_feature    order(1804..1806,1810..1812,2014..2016,2419..2421)
                     /gene="Piwil4"
                     /note="active site"
                     /db_xref="CDD:240016"
     exon            1..103
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            104..235
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            236..450
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            451..572
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            573..653
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            654..851
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            852..963
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            964..1087
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1088..1205
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1206..1317
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1318..1502
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1503..1575
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1576..1776
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1777..1880
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1881..1951
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            1952..2105
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            2106..2234
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            2235..2382
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
     exon            2383..3109
                     /gene="Piwil4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
atgagtggacgggcccgtgtgagggcgcgaggcatcaccactggccacagtgccagggaagtggagcgggccccaagagacctcatggtgagtgcttctgtctatgagcttggcgtctcttctggtgatggtagacgtactctcgtggaaaaaagaggcaatggcagacaggacttcgtcgatttgggtgtctgtaccagggagaagttgactcacgtaaaagattctaaaacaggttctagcggaatacctgtgcagctggctacaaatctcttccatttagatttgccccaggattggcagctataccagtaccatgtcacatacagcccggatttagcctctaggaggctgaggactgctctgctgtataaccacagcatactctccgacaaggcaaaggcattcgacggcaccagccttttcctctcagaaaagctggaccacaaagtcacagaactgacaagtgaaacccaaagaggggagactgtgaagataactctcaccctgaccagtgagctgttcccaaactccccgatgtgcattcagtttttcaatgtcatcttcagaaagatctttaaaaagttgagcatgtaccagattggacggaactactataagccttcagagccagtggagatcccccagtacaaattgtccctgtggcctgggtttgccatttctgtgtctcgctttgaaagcaaactcctgttcaatgctgacgtaaactataaagtcctccgcaatgagactgttctggaattcatgactgatctctgcctcagaaccgacatgtcatgcttcactgagacgtgccacaaacagctagtggggctcattgtccttaccaggtacaacaacaaaacatatcgtatcgatgacattgactggtctgtgaagcccacacatgcctttcagaagcgggatggctcagagaccacgtatgtggattactacaagcagcaatatgatatcaccttatctgacctaaatcagccagtgcttgtcagtctgttgaaaagaaggagaaatgataactccgagcctcagatggtccacctgatcccggagctctgctttctcacgggcctgaccagccaagcaacctcagacttccgcttgatgaaggcagtcgctgaagaaactcggctcagtcctatgggaaggcagcagcaactagcccgactggcagatgacatccagagaaaccaagtgactcggtttgagcttgagacctggggattgcattttggaagccagctatccctgaccggccgggttgttccctctgaaaagatcctgctgcaggaccacacatgtcaacctgcatttgctgctgattggtccaaagatatgcgatcttgcaaggttctgagttctgagcctttgaatacatggttgatcgtgtgctgtagcagggctgagcatttgattgaatccttcctgagctgtctgaggagagttggaggttccacgggattcagtgtgggccacccaaaaatcataaaagtggatgaaaaccctgcagcgttccttcgagccatccagctgcacgtcaaccccgatgttcagttggtgatgtgcatcctgccttctaatcagaagaactattacgactccattaaaagatatttgagctccgactgcccggtcccaagccagtgtgtgctgacccggaccttgaacaaacagggaatgatgctgagtgtggccaccaagatcgccatgcaaatgacctgcaaactcgggggcgagctgtgggctgtggagatcccattgaagtcactgatggtcgtgggcatcgacatctgtagagacgccctcagcaaggatgtagcggtcgtcgggtttgtcgccagcattaactccaggatcaccaggtggttttcccgctgtgtcctccagagaacggcagctgatattgcagattgcctgaaagtctgcatgactggtgctctcaacaagtggtacaaacacaaccacgatttgccggcacggataatcgcgtaccgggatggtgtgggcaacggccagctaaaggcagttttggaatacgaagtcccacagctgctgagcagtgtgacagaatgtggctccgacgccaggagctgtagactgtcagtggtcgtggtcaggaagaggtgtctgctgcgtctctttgccgagtctggccatacgctacagaaccccccacttggcactgtcgtggactcagaagcaacacgtccagagtggtatgacttctacctgaccagccagactgctaaccgggggactgttagtcccacctactacaatgtcatctatgacgacaacgctctgaagcctgaccatatgcagcggctgaccttcaaactgtgccacctctactacaactggcagggcgtaatcagtgtccctgctccgtgccagtatgcacacaagctgaccttcctggtggcacaaagcatccacaaggaaccaagtctggaattagccaataagctcttctacctgtgacaagtgggccaatagcatggctcgatggagacgccaaaaagcggttgctatgctttgttcaaatctgcctaatgctcaaggctcctgctgcttaaaggagcttcagcctgattttaagtattgggaaggagagggttttttggtttttgtttttttgttttgttttgttttgttttttgttttctgggttttttttttgttgttgttgttgttgtttttaaagtcatctgaatcagttgaggacaaacctatggggatttttgtctcccctgtgtctaaaaacaacaatgacaaacaaacaaaaacccacagagtgatgggttttcttgtggctctgtcaggcgacattttactttgtcctggtttatcctcgtatttttttttttttaagtaaatgcttgaggtgaattctcacatggtatatacgtgatgatattgggatatatcatcacagctaactggattctaaaacaatattcgtgtggtattgtgatggtgtttaagaggggtttaacttctttcctgacattaccagggttgttctaagtatcgtagagcattttgtagagtgggttaagtaaatactgaaaataaagactccctgagcatc
//

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]