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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//
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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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