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2024-04-29 14:59:17, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_006241870           15468 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus plectin (Plec), transcript variant X3,
            mRNA.
ACCESSION   XM_006241870
VERSION     XM_006241870.4
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_006241870.3.
            
            ##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..15468
                     /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..15468
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="plectin; Derived by automated computational
                     analysis using gene prediction method: Gnomon. Supporting
                     evidence includes similarity to: 1 mRNA, 62 ESTs, 42 long
                     SRA reads, 11 Proteins, and 100% coverage of the annotated
                     genomic feature by RNAseq alignments, including 37 samples
                     with support for all annotated introns"
                     /db_xref="GeneID:64204"
                     /db_xref="RGD:621649"
     CDS             225..14303
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /codon_start=1
                     /product="plectin isoform X3"
                     /protein_id="XP_006241932.1"
                     /db_xref="GeneID:64204"
                     /db_xref="RGD:621649"
                     /translation="
MVAGMLMPLDQLRAIYEVLFREGVMVAKKDRRPRSLHPHVPGVTNLQVMRAMTSLKARGLVRETFAWCHFYWYLTNEGIDHLRQYLHLPPEIVPASLQRVRRPVAMVMPARRRSPHVQTMQGPLGCPPKRGPLPAEDPAREERQVYRRKEREEGAPETPVVSATIVGTLARPGPEPTPATDERDRVQKKTFTKWVNKHLIKHWRAEAQRHISDLYEDLRDGHNLISLLEVLSGDSLPREKGRMRFHKLQNVQIALDYLRHRQVKLVNIRNDDIADGNPKLTLGLIWTIILHFQISDIQVSGQSEDMTAKEKLLLWSQRMVEGYQGLRCDNFTTSWRDGRLFNAIIHRHKPMLIDMNKVYRQTNLENLDQAFSVAERDLGVTRLLDPEDVDVPQPDEKSIITYVSSLYDAMPRVPGAQDGVRANELQLRWQEYRELVLLLLQWIRHHTAAFEERKFPSSFEEIEILWCQFLKFKETELPAKEADKNRSKGIYQSLEGAVQAGQLKIPPGYHPLDVEKEWGKLHVAILEREKQLRSEFERLECLQRIVSKLQMEAGLCEEQLNQADSLLQSDIRLLASGKAAQRAGEVERDLDKADGMIRLLFNDVQTLKDGRHPQGEQMYRRVYRLHERLVAIRTEYNLRLKAGVGAPVTQVTLQSTQRRPELEDSTLRYLHDLLAWVEENQRRIDGAEWGVDLPSVEAQLGSHRGMHQSIEEFRAKIERARNDESQLSPATRGAYRDCLGRLDLQYAKLLNSSKARLRSLESLHGFVAAATKELMWLNEKEEEEVGFDWSDRNTNMAAKKESYSALMRELEMKEKKIKEIQNTGDRLLREDHPARPTVESFQAALQTQWSWMLQLCCCIEAHLKENTAYFQFFSDVREAEEQLQKLQETLRRKYSCDRSITVTRLEDLLQDAQDEKEQLNEYKGHLSGLAKRAKAIVQLKPRNPAHPVRGHVPLLAVCDYKQVEVTVHKGDQCQLVGPAQPFHWKVLGGSSSEAAVPSVCFLVPPPNQEAQEAVARLEAQHQALVTLWHQLHVDMKSLLAWQSLNRDIQLIRSWSLVTFRTLKPEEQRQALRNLELHYQAFLRDSQDAGGFGPEDRLVAEREYGSCSRHYQQLLQSLEQGEQEESRCQRCISELKDIRLQLEACETRTVHRLRLPLDKDPARECAQRIAEQQKAQAEVEGLGKGVARLSAEAEKVLALPEPSPAAPTLRSELELTLGKLEQVRSLSAIYLEKLKTISLVIRSTQGAEEVLKTHEEHLKEAQAVPATLQELEVTKASLKKLRAQAEAQQPVFNTLRDELRGAQEVGERLQQRHGERDVEVERWRERVTQLLERWQAVLAQTDVRQRELEQLGRQLRYYRESADPLSSWLQDAKSRQEQIQAVPIANSQAAREQLRQEKALLEEIERHGEKVEECQKFAKQYINAIKDYELQLITYKAQLEPVASPAKKPKVQSGSESVIQEYVDLRTRYSELTTLTSQYIKFISETLRRMEEEERLAEQQRAEERERLAEVEAALEKQRQLAEAHAQAKAQAELEARELQRRMQEEVTRREEAAVDAQQQKRSIQEELQHLRQSSEAEIQAKAQQVEAAERSRMRIEEEIRVVRLQLETTERQRGGAEDELQALRARAEEAEAQKRQAQEEAERLRRQVQDESQRKRQAEAELALRVKAEAEAAREKQRALQALDELKLQAEEAERRLRQAEAERARQVQVALETAQRSAEVELQSKRASFAEKTAQLERTLQEEHVTVTQLREEAERRAQQQAEAERAREEAERELERWQLKANEALRLRLQAEEVAQQKSLAQADAEKQKEEAEREARRRGKAEEQAVRQRELAEQELEKQRQLAEGTAQQRLAAEQELIRLRAETEQGEQQRQLLEEELARLQHEATAATQKRQELEAELAKVRAEMEVLLASKARAEEESRSTSEKSKQRLEAEAGRFRELAEEAARLRALAEEAKRQRQLAEEDAARQRAEAERVLTEKLAAISEATRLKTEAEIALKEKEAENERLRRLAEDEAFQRRRLEEQAAQHKADIEERLAQLRKASESELERQKGLVEDTLRQRRQVEEEIMALKASFEKAAAGKAELELELGRIRSNAEDTMRSKELAEQEAARQRQLAAEEEQRRREAEERVQRSLAAEEEAARQRKVALEEVERLKAKVEEARRLRERAEQESARQLQLAQEAAQKRLQAEEKAHAFVVQQREEELQQTLQQEQNMLERLRSEAEAARRAAEEAEEAREQAEREAAQSRKQVEEAERLKQSAEEQAQAQAQAQAAAEKLRKEAEQEAARRAQAEQAALKQKQAADAEMEKHKKFAEQTLRQKAQVEQELTTLRLQLEETDHQKSILDEELQRLKAEVTEAARQRSQVEEELFSVRVQMEELGKLKARIEAENRALILRDKDNTQRFLEEEAEKMKQVAEEAARLSVAAQEAARLRQLAEEDLAQQRALAEKMLKEKMQAVQEATRLKAEAELLQQQKELAQEQARRLQEDKEQMAQQLVEETQGFQRTLEAERQRQLEMSAEAERLKLRMAEMSRAQARAEEDAQRFRKQAEEIGEKLHRTELATQEKVTLVQTLEIQRQQSDQDAERLREAIAELEREKEKLKQEAKLLQLKSEEMQTVQQEQILQETQALQKSFLSEKDSLLQRERFIEQEKAKLEQLFQDEVAKAKQLQEEQQRQQQQMEQEKQELVASMEEARRRQREAEEGVRRKQEELQRLEQQRQQQEKLLAEENQRLRERLQRLEEEHRAALAHSEEIATSQAAATKALPNGRDALDGPSMEAEPEYTFEGLRQKVPAQQLQEAGILSMEELQRLTQGHTTVAELTQREDVHRYLKGGSSIAGLLLKPTNEKLSVYTALQRQLLSPGTALILLEAQAASGFLLDPVRNRRLTVNEAVKEGVVGPELHHKLLSAERAVTGYKDPYTGEQISLFQAMKKDLIVRDHGIRLLEAQIATGGIIDPVHSHRVPVDVAYQRGYFDEEMNRVLADPSDDTKGFFDPNTHENLTYLQLLERCVEDPETGLRLLPLTDKAAKGGELVYTDTEARDVFEKATVSAPFGKFQGKTVTIWEIINSEYFTAEQRRDLLRQFRTGRITVEKIIKIVITVVEEHERKGQLCFEGLRALVPAAELLDSGVISHEVYQQLQRGERSVREVAEADEVRQALRGTSVIAGVWLEEAGQKLSIYEALRRDLLQPEVAVALLEAQAGTGHIIDPATSARLTVDEAVRAGLVGPEMHEKLLSAEKAVTGYRDPYSGQSVSLFQALKKGLIPREQGLRLLDAQLSTGGIVDPSKSHRVPLDVAYARGYLDKETNRALTSPRDDARVYLDPSTREPVTYSQLQQRCRSDQLTGLSLLPLSEKAVRARQEEVYSELQARETLEKAKVEVPVGGFKGRALTVWELISSEYFTEEQRQELLRQFRTGKVTVEKVIKILITIVEEVETQRQERLSFSGLRAPVPASELLASKILSRTQFEQLKDGKTSVKDLSEVGSVRTLLQGSGCLAGIYLEDSKEKVTIYEAMRRGLLRPSTATLLLEAQAATGFLVDPVRNQRLYVHEAVKAGVVGPELHEKLLSAEKAVTGYKDPYSGSTISLFQAMKKGLVLRDHAIRLLEAQIATGGIIDPVHSHRLPVDVAYQRGYFDEEMNRVLADPSDDTKGFFDPNTHENLTYLQLLERCVEDPETGLRLLPLRGAEKTEVVETTQVYTEEETRRAFEETQIDIPGGGSHGGSSMSLWEVMQSDMIPEDQRARLMADFQAGRVTKERMIIIIIEIIEKTEIIRQQNLASYDYVRRRLTAEDLYEARIISLETYNLFREGTKSLREVLEMESAWRYLYGTGSVAGVYLPGSRQTLTIYQALKKGLLSAEVARLLLEAQAATGFLLDPVKGERLTVDEAVRKGLVGPELHDRLLSAERAVTGYRDPYTEQPISLFQAMKKELIPAEEALRLLDAQLATGGIVDPRLGFHLPLEVAYQRGYLNKDTHDQLSEPSEVRSYVDPSTDERLSYTQLLKRCRRDDNSGQMLLPLSDARKLTFRGLRKQITVEELVRSQVMDEATALQLQEGLTSIEEVTKNLQKFLEGTSCIAGVFVDATKERLSVYQAMKKGIIRPGTAFELLEAQAATGYVIDPIKGLKLTVEEAVRMGIVGPEFKDKLLSAERAVTGYKDPYSGKLISLFQAMKKGLILKDHGIRLLEAQIATGGIIDPEESHRLPVEVAYKRGLFDEEMNEILTDPSDDTKGFFDPNTEENLTYLQLMERCITDPQTGLCLLPLKEKKRERKTSSKSSVRKRRVVIVDPETGKEMSVYEAYRKGLIDHQTYLELSEQECEWEEITISSSDGVVKSMIIDRRSGRQYDIDDAITKNLIDRSALDQYRAGTLSITEFADMLSGNAGGFRSRSSSVGSSSSYPISSAVPRTQLASWSDPTEETGPVAGILDTETLEKVSITEAMHRNLVDNITGQRLLEAQACTGGIIDPSTGERFPVTEAVNKGLVDKIMVDRINLAQKAFCGFEDPRTKTKMSAAQALKKGWLYYEAGQRFLEVQYLTGGLIEPDTPGRVSLDEALQRGTVDARTAQKLRDVSAYSKYLTCPKTKLKISYKDALDRSMVEEGTGLRLLEAAAQSSKGYYSPYSVSGSGSTAGSRTGSRTGSRAGSRRGSFDATGSGFSMTFSSSSYSSSGYGRRYASGPSASLGGPESAVA"
     misc_feature    243..521
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin/S10 domain; Region: S10_plectin; pfam03501"
                     /db_xref="CDD:427337"
     misc_feature    774..1103
                     /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(783..785,795..797,960..962,966..971,978..983,
                     987..989,1014..1040,1053..1055,1059..1064,1068..1073,
                     1080..1085,1092..1094)
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="putative actin binding site [polypeptide binding];
                     other site"
                     /db_xref="CDD:409037"
     misc_feature    1140..1457
                     /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(1146..1148,1158..1160,1308..1310,1314..1319,
                     1326..1331,1335..1337,1362..1388,1407..1409,1413..1418,
                     1422..1427,1434..1439,1446..1448)
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="putative actin binding site [polypeptide binding];
                     other site"
                     /db_xref="CDD:409087"
     misc_feature    order(1230..1232,1239..1241,1299..1310,1314..1319)
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="polypeptide substrate binding site [polypeptide
                     binding]; other site"
                     /db_xref="CDD:409087"
     misc_feature    2511..3047
                     /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    2820..2837
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="linker region [active]"
                     /db_xref="CDD:238103"
     misc_feature    3036..3236
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="SH3 domain; Region: SH3_10; pfam17902"
                     /db_xref="CDD:407754"
     misc_feature    3339..3572
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Spectrin like domain; Region: Spectrin_like;
                     pfam18373"
                     /db_xref="CDD:436447"
     misc_feature    <3735..5345
                     /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    <4692..6812
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="MAEBL; Provisional; Region: PTZ00121"
                     /db_xref="CDD:173412"
     misc_feature    <5823..8366
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="MAEBL; Provisional; Region: PTZ00121"
                     /db_xref="CDD:173412"
     misc_feature    8730..8846
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    8844..8960
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    8955..9065
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    9072..9188
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    9708..9821
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    9828..9944
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    9939..10049
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    10056..10172
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    10707..10823
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    10821..10937
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    10932..11027
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    11049..11165
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    11709..11819
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    11826..11942
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    11937..12047
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    12054..12170
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    12435..12548
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    12555..12671
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    12783..12899
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    <13086..13172
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    13482..13583
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: PLEC; smart00250"
                     /db_xref="CDD:197605"
     misc_feature    13590..13706
                     /gene="Plec"
                     /gene_synonym="Pcn; Plec1; Pltn"
                     /note="Plectin repeat; Region: Plectin; pfam00681"
                     /db_xref="CDD:425816"
     misc_feature    13818..13934
                     /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]