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2024-04-29 06:26:28, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_006241882           15376 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus plectin (Plec), transcript variant
            X18, mRNA.
ACCESSION   XM_006241882
VERSION     XM_006241882.3
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_006241882.2.
            
            ##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..15376
                     /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..15376
                     /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, 63 ESTs, 42 long
                     SRA reads, 7 Proteins, and 100% coverage of the annotated
                     genomic feature by RNAseq alignments, including 42 samples
                     with support for all annotated introns"
                     /db_xref="GeneID:64204"
                     /db_xref="RGD:621649"
     CDS             562..14211
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /codon_start=1
                     /product="plectin isoform X16"
                     /protein_id="XP_006241944.1"
                     /db_xref="GeneID:64204"
                     /db_xref="RGD:621649"
                     /translation="
MEPSGSLFPSLVVVGHVVSLAAVWHWRKGHRQAQDEQDERDRVQKKTFTKWVNKHLIKHWRAEAQRHISDLYEDLRDGHNLISLLEVLSGDSLPREKGRMRFHKLQNVQIALDYLRHRQVKLVNIRNDDIADGNPKLTLGLIWTIILHFQISDIQVSGQSEDMTAKEKLLLWSQRMVEGYQGLRCDNFTTSWRDGRLFNAIIHRHKPMLIDMNKVYRQTNLENLDQAFSVAERDLGVTRLLDPEDVDVPQPDEKSIITYVSSLYDAMPRVPGAQDGVRANELQLRWQEYRELVLLLLQWIRHHTAAFEERKFPSSFEEIEILWCQFLKFKETELPAKEADKNRSKGIYQSLEGAVQAGQLKIPPGYHPLDVEKEWGKLHVAILEREKQLRSEFERLECLQRIVSKLQMEAGLCEEQLNQADSLLQSDIRLLASGKAAQRAGEVERDLDKADGMIRLLFNDVQTLKDGRHPQGEQMYRRVYRLHERLVAIRTEYNLRLKAGVGAPVTQVTLQSTQRRPELEDSTLRYLHDLLAWVEENQRRIDGAEWGVDLPSVEAQLGSHRGMHQSIEEFRAKIERARNDESQLSPATRGAYRDCLGRLDLQYAKLLNSSKARLRSLESLHGFVAAATKELMWLNEKEEEEVGFDWSDRNTNMAAKKESYSALMRELEMKEKKIKEIQNTGDRLLREDHPARPTVESFQAALQTQWSWMLQLCCCIEAHLKENTAYFQFFSDVREAEEQLQKLQETLRRKYSCDRSITVTRLEDLLQDAQDEKEQLNEYKGHLSGLAKRAKAIVQLKPRNPAHPVRGHVPLLAVCDYKQVEVTVHKGDQCQLVGPAQPFHWKVLGGSSSEAAVPSVCFLVPPPNQEAQEAVARLEAQHQALVTLWHQLHVDMKSLLAWQSLNRDIQLIRSWSLVTFRTLKPEEQRQALRNLELHYQAFLRDSQDAGGFGPEDRLVAEREYGSCSRHYQQLLQSLEQGEQEESRCQRCISELKDIRLQLEACETRTVHRLRLPLDKDPARECAQRIAEQQKAQAEVEGLGKGVARLSAEAEKVLALPEPSPAAPTLRSELELTLGKLEQVRSLSAIYLEKLKTISLVIRSTQGAEEVLKTHEEHLKEAQAVPATLQELEVTKASLKKLRAQAEAQQPVFNTLRDELRGAQEVGERLQQRHGERDVEVERWRERVTQLLERWQAVLAQTDVRQRELEQLGRQLRYYRESADPLSSWLQDAKSRQEQIQAVPIANSQAAREQLRQEKALLEEIERHGEKVEECQKFAKQYINAIKDYELQLITYKAQLEPVASPAKKPKVQSGSESVIQEYVDLRTRYSELTTLTSQYIKFISETLRRMEEEERLAEQQRAEERERLAEVEAALEKQRQLAEAHAQAKAQAELEARELQRRMQEEVTRREEAAVDAQQQKRSIQEELQHLRQSSEAEIQAKAQQVEAAERSRMRIEEEIRVVRLQLETTERQRGGAEDELQALRARAEEAEAQKRQAQEEAERLRRQVQDESQRKRQAEAELALRVKAEAEAAREKQRALQALDELKLQAEEAERRLRQAEAERARQVQVALETAQRSAEVELQSKRASFAEKTAQLERTLQEEHVTVTQLREEAERRAQQQAEAERAREEAERELERWQLKANEALRLRLQAEEVAQQKSLAQADAEKQKEEAEREARRRGKAEEQAVRQRELAEQELEKQRQLAEGTAQQRLAAEQELIRLRAETEQGEQQRQLLEEELARLQHEATAATQKRQELEAELAKVRAEMEVLLASKARAEEESRSTSEKSKQRLEAEAGRFRELAEEAARLRALAEEAKRQRQLAEEDAARQRAEAERVLTEKLAAISEATRLKTEAEIALKEKEAENERLRRLAEDEAFQRRRLEEQAAQHKADIEERLAQLRKASESELERQKGLVEDTLRQRRQVEEEIMALKASFEKAAAGKAELELELGRIRSNAEDTMRSKELAEQEAARQRQLAAEEEQRRREAEERVQRSLAAEEEAARQRKVALEEVERLKAKVEEARRLRERAEQESARQLQLAQEAAQKRLQAEEKAHAFVVQQREEELQQTLQQEQNMLERLRSEAEAARRAAEEAEEAREQAEREAAQSRKQVEEAERLKQSAEEQAQAQAQAQAAAEKLRKEAEQEAARRAQAEQAALKQKQAADAEMEKHKKFAEQTLRQKAQVEQELTTLRLQLEETDHQKSILDEELQRLKAEVTEAARQRSQVEEELFSVRVQMEELGKLKARIEAENRALILRDKDNTQRFLEEEAEKMKQVAEEAARLSVAAQEAARLRQLAEEDLAQQRALAEKMLKEKMQAVQEATRLKAEAELLQQQKELAQEQARRLQEDKEQMAQQLVEETQGFQRTLEAERQRQLEMSAEAERLKLRMAEMSRAQARAEEDAQRFRKQAEEIGEKLHRTELATQEKVTLVQTLEIQRQQSDQDAERLREAIAELEREKEKLKQEAKLLQLKSEEMQTVQQEQILQETQALQKSFLSEKDSLLQRERFIEQEKAKLEQLFQDEVAKAKQLQEEQQRQQQQMEQEKQELVASMEEARRRQREAEEGVRRKQEELQRLEQQRQQQEKLLAEENQRLRERLQRLEEEHRAALAHSEEIATSQAAATKALPNGRDALDGPSMEAEPEYTFEGLRQKVPAQQLQEAGILSMEELQRLTQGHTTVAELTQREDVHRYLKGGSSIAGLLLKPTNEKLSVYTALQRQLLSPGTALILLEAQAASGFLLDPVRNRRLTVNEAVKEGVVGPELHHKLLSAERAVTGYKDPYTGEQISLFQAMKKDLIVRDHGIRLLEAQIATGGIIDPVHSHRVPVDVAYQRGYFDEEMNRVLADPSDDTKGFFDPNTHENLTYLQLLERCVEDPETGLRLLPLTDKAAKGGELVYTDTEARDVFEKATVSAPFGKFQGKTVTIWEIINSEYFTAEQRRDLLRQFRTGRITVEKIIKIVITVVEEHERKGQLCFEGLRALVPAAELLDSGVISHEVYQQLQRGERSVREVAEADEVRQALRGTSVIAGVWLEEAGQKLSIYEALRRDLLQPEVAVALLEAQAGTGHIIDPATSARLTVDEAVRAGLVGPEMHEKLLSAEKAVTGYRDPYSGQSVSLFQALKKGLIPREQGLRLLDAQLSTGGIVDPSKSHRVPLDVAYARGYLDKETNRALTSPRDDARVYLDPSTREPVTYSQLQQRCRSDQLTGLSLLPLSEKAVRARQEEVYSELQARETLEKAKVEVPVGGFKGRALTVWELISSEYFTEEQRQELLRQFRTGKVTVEKVIKILITIVEEVETQRQERLSFSGLRAPVPASELLASKILSRTQFEQLKDGKTSVKDLSEVGSVRTLLQGSGCLAGIYLEDSKEKVTIYEAMRRGLLRPSTATLLLEAQAATGFLVDPVRNQRLYVHEAVKAGVVGPELHEKLLSAEKAVTGYKDPYSGSTISLFQAMKKGLVLRDHAIRLLEAQIATGGIIDPVHSHRLPVDVAYQRGYFDEEMNRVLADPSDDTKGFFDPNTHENLTYLQLLERCVEDPETGLRLLPLRGAEKTEVVETTQVYTEEETRRAFEETQIDIPGGGSHGGSSMSLWEVMQSDMIPEDQRARLMADFQAGRVTKERMIIIIIEIIEKTEIIRQQNLASYDYVRRRLTAEDLYEARIISLETYNLFREGTKSLREVLEMESAWRYLYGTGSVAGVYLPGSRQTLTIYQALKKGLLSAEVARLLLEAQAATGFLLDPVKGERLTVDEAVRKGLVGPELHDRLLSAERAVTGYRDPYTEQPISLFQAMKKELIPAEEALRLLDAQLATGGIVDPRLGFHLPLEVAYQRGYLNKDTHDQLSEPSEVRSYVDPSTDERLSYTQLLKRCRRDDNSGQMLLPLSDARKLTFRGLRKQITVEELVRSQVMDEATALQLQEGLTSIEEVTKNLQKFLEGTSCIAGVFVDATKERLSVYQAMKKGIIRPGTAFELLEAQAATGYVIDPIKGLKLTVEEAVRMGIVGPEFKDKLLSAERAVTGYKDPYSGKLISLFQAMKKGLILKDHGIRLLEAQIATGGIIDPEESHRLPVEVAYKRGLFDEEMNEILTDPSDDTKGFFDPNTEENLTYLQLMERCITDPQTGLCLLPLKEKKRERKTSSKSSVRKRRVVIVDPETGKEMSVYEAYRKGLIDHQTYLELSEQECEWEEITISSSDGVVKSMIIDRRSGRQYDIDDAITKNLIDRSALDQYRAGTLSITEFADMLSGNAGGFRSRSSSVGSSSSYPISSAVPRTQLASWSDPTEETGPVAGILDTETLEKVSITEAMHRNLVDNITGQRLLEAQACTGGIIDPSTGERFPVTEAVNKGLVDKIMVDRINLAQKAFCGFEDPRTKTKMSAAQALKKGWLYYEAGQRFLEVQYLTGGLIEPDTPGRVSLDEALQRGTVDARTAQKLRDVSAYSKYLTCPKTKLKISYKDALDRSMVEEGTGLRLLEAAAQSSKGYYSPYSVSGSGSTAGSRTGSRTGSRAGSRRGSFDATGSGFSMTFSSSSYSSSGYGRRYASGPSASLGGPESAVA"
     misc_feature    682..1011
                     /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(691..693,703..705,868..870,874..879,886..891,
                     895..897,922..948,961..963,967..972,976..981,988..993,
                     1000..1002)
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="putative actin binding site [polypeptide binding];
                     other site"
                     /db_xref="CDD:409037"
     misc_feature    1048..1365
                     /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(1054..1056,1066..1068,1216..1218,1222..1227,
                     1234..1239,1243..1245,1270..1296,1315..1317,1321..1326,
                     1330..1335,1342..1347,1354..1356)
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="putative actin binding site [polypeptide binding];
                     other site"
                     /db_xref="CDD:409087"
     misc_feature    order(1138..1140,1147..1149,1207..1218,1222..1227)
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="polypeptide substrate binding site [polypeptide
                     binding]; other site"
                     /db_xref="CDD:409087"
     misc_feature    2419..2955
                     /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    2728..2745
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="linker region [active]"
                     /db_xref="CDD:238103"
     misc_feature    2944..3144
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="SH3 domain; Region: SH3_10; pfam17902"
                     /db_xref="CDD:407754"
     misc_feature    3247..3480
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Spectrin like domain; Region: Spectrin_like;
                     pfam18373"
                     /db_xref="CDD:436447"
     misc_feature    <3643..5253
                     /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    <4600..6720
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="MAEBL; Provisional; Region: PTZ00121"
                     /db_xref="CDD:173412"
     misc_feature    <5731..8274
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="MAEBL; Provisional; Region: PTZ00121"
                     /db_xref="CDD:173412"
     misc_feature    8638..8754
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    8752..8868
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    8863..8973
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    8980..9096
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    9616..9729
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    9736..9852
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    9847..9957
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    9964..10080
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    10615..10731
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    10729..10845
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    10840..10935
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    10957..11073
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    11617..11727
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    11734..11850
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    11845..11955
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    11962..12078
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    12343..12456
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    12463..12579
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    12691..12807
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    <12994..13080
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    13390..13491
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    13498..13614
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    13726..13842
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
ORIGIN      
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//

by @meso_cacase at DBCLS
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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]