2024-04-29 05:10:09, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_017595086 15090 bp mRNA linear ROD 11-JUN-2023 DEFINITION PREDICTED: Rattus norvegicus plectin (Plec), transcript variant X6, mRNA. ACCESSION XM_017595086 VERSION XM_017595086.2 DBLINK BioProject: PRJNA677964 KEYWORDS RefSeq. SOURCE Rattus norvegicus (Norway rat) ORGANISM Rattus norvegicus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_051342.1) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process On Jan 21, 2021 this sequence version replaced XM_017595086.1. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Status :: Updated annotation Annotation Name :: GCF_015227675.2-RS_2023_06 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 10.1 Annotation Method :: Best-placed RefSeq; Gnomon; cmsearch; tRNAscan-SE Features Annotated :: Gene; mRNA; CDS; ncRNA Annotation Date :: 06/06/2023 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..15090 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN/NHsdMcwi" /db_xref="taxon:10116" /chromosome="7" /sex="male" /tissue_type="kidney" /country="USA: Wisconsin, Milwaukee, Medical College of Wisconsin" /collection_date="2019-03-08" /collected_by="Rebecca Schilling" gene 1..15090 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="plectin; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 62 ESTs, 42 long SRA reads, 8 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 28 samples with support for all annotated introns" /db_xref="GeneID:64204" /db_xref="RGD:621649" CDS 153..13925 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /codon_start=1 /product="plectin isoform X6" /protein_id="XP_017450575.1" /db_xref="GeneID:64204" /db_xref="RGD:621649" /translation="
MSGEDSEVRPVAVAEGSSNGSSGSPSPGDTLPWNLGKTQRSRRSGGGSVGNGSVLDPAERAVIRIADERDRVQKKTFTKWVNKHLIKHWRAEAQRHISDLYEDLRDGHNLISLLEVLSGDSLPRERDVIRSVRLPREKGRMRFHKLQNVQIALDYLRHRQVKLVNIRNDDIADGNPKLTLGLIWTIILHFQISDIQVSGQSEDMTAKEKLLLWSQRMVEGYQGLRCDNFTTSWRDGRLFNAIIHRHKPMLIDMNKVYRQTNLENLDQAFSVAERDLGVTRLLDPEDVDVPQPDEKSIITYVSSLYDAMPRVPGAQDGVRANELQLRWQEYRELVLLLLQWIRHHTAAFEERKFPSSFEEIEILWCQFLKFKETELPAKEADKNRSKGIYQSLEGAVQAGQLKIPPGYHPLDVEKEWGKLHVAILEREKQLRSEFERLECLQRIVSKLQMEAGLCEEQLNQADSLLQSDIRLLASGKAAQRAGEVERDLDKADGMIRLLFNDVQTLKDGRHPQGEQMYRRVYRLHERLVAIRTEYNLRLKAGVGAPVTQVTLQSTQRRPELEDSTLRYLHDLLAWVEENQRRIDGAEWGVDLPSVEAQLGSHRGMHQSIEEFRAKIERARNDESQLSPATRGAYRDCLGRLDLQYAKLLNSSKARLRSLESLHGFVAAATKELMWLNEKEEEEVGFDWSDRNTNMAAKKESYSALMRELEMKEKKIKEIQNTGDRLLREDHPARPTVESFQAALQTQWSWMLQLCCCIEAHLKENTAYFQFFSDVREAEEQLQKLQETLRRKYSCDRSITVTRLEDLLQDAQDEKEQLNEYKGHLSGLAKRAKAIVQLKPRNPAHPVRGHVPLLAVCDYKQVEVTVHKGDQCQLVGPAQPFHWKVLGGSSSEAAVPSVCFLVPPPNQEAQEAVARLEAQHQALVTLWHQLHVDMKSLLAWQSLNRDIQLIRSWSLVTFRTLKPEEQRQALRNLELHYQAFLRDSQDAGGFGPEDRLVAEREYGSCSRHYQQLLQSLEQGEQEESRCQRCISELKDIRLQLEACETRTVHRLRLPLDKDPARECAQRIAEQQKAQAEVEGLGKGVARLSAEAEKVLALPEPSPAAPTLRSELELTLGKLEQVRSLSAIYLEKLKTISLVIRSTQGAEEVLKTHEEHLKEAQAVPATLQELEVTKASLKKLRAQAEAQQPVFNTLRDELRGAQEVGERLQQRHGERDVEVERWRERVTQLLERWQAVLAQTDVRQRELEQLGRQLRYYRESADPLSSWLQDAKSRQEQIQAVPIANSQAAREQLRQEKALLEEIERHGEKVEECQKFAKQYINAIKDYELQLITYKAQLEPVASPAKKPKVQSGSESVIQEYVDLRTRYSELTTLTSQYIKFISETLRRMEEEERLAEQQRAEERERLAEVEAALEKQRQLAEAHAQAKAQAELEARELQRRMQEEVTRREEAAVDAQQQKRSIQEELQHLRQSSEAEIQAKAQQVEAAERSRMRIEEEIRVVRLQLETTERQRGGAEDELQALRARAEEAEAQKRQAQEEAERLRRQVQDESQRKRQAEAELALRVKAEAEAAREKQRALQALDELKLQAEEAERRLRQAEAERARQVQVALETAQRSAEVELQSKRASFAEKTAQLERTLQEEHVTVTQLREEAERRAQQQAEAERAREEAERELERWQLKANEALRLRLQAEEVAQQKSLAQADAEKQKEEAEREARRRGKAEEQAVRQRELAEQELEKQRQLAEGTAQQRLAAEQELIRLRAETEQGEQQRQLLEEELARLQHEATAATQKRQELEAELAKVRAEMEVLLASKARAEEESRSTSEKSKQRLEAEAGRFRELAEEAARLRALAEEAKRQRQLAEEDAARQRAEAERVLTEKLAAISEATRLKTEAEIALKEKEAENERLRRLAEDEAFQRRRLEEQAAQHKADIEERLAQLRKASESELERQKGLVEDTLRQRRQVEEEIMALKASFEKAAAGKAELELELGRIRSNAEDTMRSKELAEQEAARQRQLAAEEEQRRREAEERVQRSLAAEEEAARQRKVALEEVERLKAKVEEARRLRERAEQESARQLQLAQEAAQKRLQAEEKAHAFVVQQREEELQQTLQQEQNMLERLRSEAEAARRAAEEAEEAREQAEREAAQSRKQVEEAERLKQSAEEQAQAQAQAQAAAEKLRKEAEQEAARRAQAEQAALKQKQAADAEMEKHKKFAEQTLRQKAQVEQELTTLRLQLEETDHQKSILDEELQRLKAEVTEAARQRSQVEEELFSVRVQMEELGKLKARIEAENRALILRDKDNTQRFLEEEAEKMKQVAEEAARLSVAAQEAARLRQLAEEDLAQQRALAEKMLKEKMQAVQEATRLKAEAELLQQQKELAQEQARRLQEDKEQMAQQLVEETQGFQRTLEAERQRQLEMSAEAERLKLRMAEMSRAQARAEEDAQRFRKQAEEIGEKLHRTELATQEKVTLVQTLEIQRQQSDQDAERLREAIAELEREKEKLKQEAKLLQLKSEEMQTVQQEQILQETQALQKSFLSEKDSLLQRERFIEQEKAKLEQLFQDEVAKAKQLQEEQQRQQQQMEQEKQELVASMEEARRRQREAEEGVRRKQEELQRLEQQRQQQEKLLAEENQRLRERLQRLEEEHRAALAHSEEIATSQAAATKALPNGRDALDGPSMEAEPEYTFEGLRQKVPAQQLQEAGILSMEELQRLTQGHTTVAELTQREDVHRYLKGGSSIAGLLLKPTNEKLSVYTALQRQLLSPGTALILLEAQAASGFLLDPVRNRRLTVNEAVKEGVVGPELHHKLLSAERAVTGYKDPYTGEQISLFQAMKKDLIVRDHGIRLLEAQIATGGIIDPVHSHRVPVDVAYQRGYFDEEMNRVLADPSDDTKGFFDPNTHENLTYLQLLERCVEDPETGLRLLPLTDKAAKGGELVYTDTEARDVFEKATVSAPFGKFQGKTVTIWEIINSEYFTAEQRRDLLRQFRTGRITVEKIIKIVITVVEEHERKGQLCFEGLRALVPAAELLDSGVISHEVYQQLQRGERSVREVAEADEVRQALRGTSVIAGVWLEEAGQKLSIYEALRRDLLQPEVAVALLEAQAGTGHIIDPATSARLTVDEAVRAGLVGPEMHEKLLSAEKAVTGYRDPYSGQSVSLFQALKKGLIPREQGLRLLDAQLSTGGIVDPSKSHRVPLDVAYARGYLDKETNRALTSPRDDARVYLDPSTREPVTYSQLQQRCRSDQLTGLSLLPLSEKAVRARQEEVYSELQARETLEKAKVEVPVGGFKGRALTVWELISSEYFTEEQRQELLRQFRTGKVTVEKVIKILITIVEEVETQRQERLSFSGLRAPVPASELLASKILSRTQFEQLKDGKTSVKDLSEVGSVRTLLQGSGCLAGIYLEDSKEKVTIYEAMRRGLLRPSTATLLLEAQAATGFLVDPVRNQRLYVHEAVKAGVVGPELHEKLLSAEKAVTGYKDPYSGSTISLFQAMKKGLVLRDHAIRLLEAQIATGGIIDPVHSHRLPVDVAYQRGYFDEEMNRVLADPSDDTKGFFDPNTHENLTYLQLLERCVEDPETGLRLLPLRGAEKTEVVETTQVYTEEETRRAFEETQIDIPGGGSHGGSSMSLWEVMQSDMIPEDQRARLMADFQAGRVTKERMIIIIIEIIEKTEIIRQQNLASYDYVRRRLTAEDLYEARIISLETYNLFREGTKSLREVLEMESAWRYLYGTGSVAGVYLPGSRQTLTIYQALKKGLLSAEVARLLLEAQAATGFLLDPVKGERLTVDEAVRKGLVGPELHDRLLSAERAVTGYRDPYTEQPISLFQAMKKELIPAEEALRLLDAQLATGGIVDPRLGFHLPLEVAYQRGYLNKDTHDQLSEPSEVRSYVDPSTDERLSYTQLLKRCRRDDNSGQMLLPLSDARKLTFRGLRKQITVEELVRSQVMDEATALQLQEGLTSIEEVTKNLQKFLEGTSCIAGVFVDATKERLSVYQAMKKGIIRPGTAFELLEAQAATGYVIDPIKGLKLTVEEAVRMGIVGPEFKDKLLSAERAVTGYKDPYSGKLISLFQAMKKGLILKDHGIRLLEAQIATGGIIDPEESHRLPVEVAYKRGLFDEEMNEILTDPSDDTKGFFDPNTEENLTYLQLMERCITDPQTGLCLLPLKEKKRERKTSSKSSVRKRRVVIVDPETGKEMSVYEAYRKGLIDHQTYLELSEQECEWEEITISSSDGVVKSMIIDRRSGRQYDIDDAITKNLIDRSALDQYRAGTLSITEFADMLSGNAGGFRSRSSSVGSSSSYPISSAVPRTQLASWSDPTEETGPVAGILDTETLEKVSITEAMHRNLVDNITGQRLLEAQACTGGIIDPSTGERFPVTEAVNKGLVDKIMVDRINLAQKAFCGFEDPRTKTKMSAAQALKKGWLYYEAGQRFLEVQYLTGGLIEPDTPGRVSLDEALQRGTVDARTAQKLRDVSAYSKYLTCPKTKLKISYKDALDRSMVEEGTGLRLLEAAAQSSKGYYSPYSVSGSGSTAGSRTGSRTGSRAGSRRGSFDATGSGFSMTFSSSSYSSSGYGRRYASGPSASLGGPESAVA"
misc_feature 360..725 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family; Region: CH_PLEC-like_rpt1; cd21188" /db_xref="CDD:409037" misc_feature order(369..371,381..383,582..584,588..593,600..605, 609..611,636..662,675..677,681..686,690..695,702..707, 714..716) /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="putative actin binding site [polypeptide binding]; other site" /db_xref="CDD:409037" misc_feature 762..1079 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="second calponin homology (CH) domain found in plectin and similar proteins; Region: CH_PLEC_rpt2; cd21238" /db_xref="CDD:409087" misc_feature order(768..770,780..782,930..932,936..941,948..953, 957..959,984..1010,1029..1031,1035..1040,1044..1049, 1056..1061,1068..1070) /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="putative actin binding site [polypeptide binding]; other site" /db_xref="CDD:409087" misc_feature order(852..854,861..863,921..932,936..941) /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="polypeptide substrate binding site [polypeptide binding]; other site" /db_xref="CDD:409087" misc_feature 2133..2669 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cd00176" /db_xref="CDD:238103" misc_feature 2442..2459 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="linker region [active]" /db_xref="CDD:238103" misc_feature 2658..2858 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="SH3 domain; Region: SH3_10; pfam17902" /db_xref="CDD:407754" misc_feature 2961..3194 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Spectrin like domain; Region: Spectrin_like; pfam18373" /db_xref="CDD:436447" misc_feature <3357..4967 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair]; Region: SbcC; COG0419" /db_xref="CDD:223496" misc_feature <4314..6434 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="MAEBL; Provisional; Region: PTZ00121" /db_xref="CDD:173412" misc_feature <5445..7988 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="MAEBL; Provisional; Region: PTZ00121" /db_xref="CDD:173412" misc_feature 8352..8468 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 8466..8582 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 8577..8687 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 8694..8810 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 9330..9443 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 9450..9566 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 9561..9671 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 9678..9794 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 10329..10445 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 10443..10559 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 10554..10649 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 10671..10787 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 11331..11441 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 11448..11564 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 11559..11669 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 11676..11792 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 12057..12170 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 12177..12293 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 12405..12521 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature <12708..12794 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 13104..13205 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: PLEC; smart00250" /db_xref="CDD:197605" misc_feature 13212..13328 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" misc_feature 13440..13556 /gene="Plec" /gene_synonym="Pcn; Plec1; Pltn" /note="Plectin repeat; Region: Plectin; pfam00681" /db_xref="CDD:425816" ORIGIN
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acaggtggagatgccaggcagaacactaacctgaccatgggcgggggccctgcggtgtccgcccctcaataaaagcaattccaaccttca
//
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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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