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LOCUS XM_013242454 6680 bp mRNA linear INV 02-SEP-2023 subunit RPB1 (LOC106080855), mRNA. ACCESSION XM_013242454 VERSION XM_013242454.2 DBLINK BioProject: PRJNA1009844 KEYWORDS RefSeq. SOURCE Stomoxys calcitrans (stable fly) ORGANISM Stomoxys calcitrans Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Muscoidea; Muscidae; Stomoxys. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_081555) annotated using gene prediction method: Gnomon. Also see: Documentation of NCBI's Annotation Process On Sep 2, 2023 this sequence version replaced XM_013242454.1. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Status :: Full annotation Annotation Name :: GCF_963082655.1-RS_2023_08 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 :: 08/29/2023 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..6680 /organism="Stomoxys calcitrans" /mol_type="mRNA" /db_xref="taxon:35570" /chromosome="4" gene 1..6680 /gene="LOC106080855" /note="DNA-directed RNA polymerase II subunit RPB1; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 53 Proteins" /db_xref="GeneID:106080855" CDS 458..6136 /gene="LOC106080855" /codon_start=1 /product="DNA-directed RNA polymerase II subunit RPB1" /protein_id="XP_013097908.1" /db_xref="GeneID:106080855" /translation="MATNDSKAPLRQVKRVQFGILSPDEIRRMSVTEGGVQFAETMEG GRPKLGGLMDPRQGVIDRTSRCQTCAGNMTECPGHFGHIDLAKPVFHIGFITKTIKIL RCVCFYCSKMLVSPSNPKIKEVVLKTKGQPRKRLAYVYDLCKGKKICEGGEDMDMTKD GQPADPNKKPGHGGCGHYQPSLRRTGLDLTAEWKHVNEDSQEKKIQVTAERVWEILKH ITDEECFVMGMDPKYARPDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIK ANNELRKNEACGAAAHVILENIKMLQFHVATLVDNDMPGMPRAMQKSGKPLKAIKSRL KGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNIDR MQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKPSDLHLQCGYKVERHLRDDDLVIFN RQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVEN IHVTPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITREQMMNLLMFLPTWDGKMP QPCILKPKPLWTGKQIFTLIIPGNVNMIRTHSTHPDDEDDGPYKWISPGDTKVMVEHG ELIMGILCKKTLGTSAGSLLHIVFLELGHEIAGRFYGNIQTVINNWLLLEGHSIGIGD TIADPQTYNEIQMAIKKAKDDVINVIQKAHNMELEPTPGNTLRQTFENQVNRILNDAR DKTGGSAKKSLTEYNSLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTL PHFIKDDYGPESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLI KAMESVMVNYDGTVRNSVGQLIQLRYGEDGLAGETVEFQNLPTVKLSNKSFEKRFKFD WSNERYMRKVFTDEVIKELSESGNALPELEIEWDQLCRDREALREIFPNGDSKVVLPC NLQRMIWNVQKIFHINKRMPTDLSPLRVINGVRDLLQRCVIVVGNDRLSKQANENATL LFQCLVRSTLCTKYVAEEFRLSTEAFEWLIGEIETRFQQAQANPGEMVGALAAQSLGE PATQMTLNTFHFAGVSSKNVTLGVPRLKEIINISKKPKAPSLTVFLTGGAARDAEKAK NVLCRLEHTTLRKVTANTAIYYDPDPQRTVIAEDQEFVNVYYEMPDFDPTRISPWLLR IELDRKRMTDKKLTMEQIAEKINAGFGDDLNCIFNDDNADKLVLRIRIMNNEENKFQD EDEAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKKRIIITETGEFK AIGEWLLETDGTSMMKVLSERDVDPVRTSSNDICEIFQVLGIEAVRKSVEKEMNAVLQ FYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDVLLDASAH AETDPMRGVSENIIMGQLPKMGTGCFDLLLDAEKCRYGIEIANTMGSSILGGSGMFFG AVSTPSMSPPMTPWQNCGTPRYFSPSGQMSGMTPGGPSFSPSAASEASGMSPSWSPAH PGSSPSSPGPPMSPFFPPSPSVSPSYSPTSPTYTASSPGGASPSYSPLSPSYSPTSPA FGSTSPRYSSTTPNFNPQSTGYSPSNSGYSPSSPVYSPTSPFHHSSSPSYTGSGGSNM YSPTSAYSPTSSNYSPNSPSYSPTSPSYSPSSPSYSPSSPCYSPTSPSYSPSSPTYTP VTPSYSPSSPHYSSSPHYSPASPAYSQTGVKYSPTSPKYSPPSPSYDGSAGSPQYTPG SPQYSPASPKYSPTSPLYSPTSPQHSPANQYSPTGSSYSATSPRYSPNNMSVYSPGST KYSPTSPTYTPTRNYSPASPMYSPTAPSHGYSPTSPAYSPSSPTYEDSEE" misc_feature 497..3058 /gene="LOC106080855" /note="Largest subunit (Rpb1) of eukaryotic RNA polymerase II (RNAP II), N-terminal domain; Region: RNAP_II_RPB1_N; cd02733" /db_xref="CDD:259848" misc_feature order(518..520,530..532,539..544,683..691,695..697, 728..730,1178..1180,1184..1186,1190..1192,1205..1210, 1382..1384,1445..1447,1454..1459,1466..1468,1487..1489, 1496..1498,1502..1525,1538..1546,1580..1582,1589..1594, 1799..1801,1805..1807,1811..1813,1823..1828,1832..1837, 1868..1873,1877..1879,1886..1888,1913..1924,1928..1930, 1934..1936,1940..1942,1949..1954,1961..1963,1970..1975, 1982..1987,2000..2002,2045..2050,2057..2059,2468..2473, 2735..2737,2750..2755,2768..2770,2777..2782,2807..2812, 2900..2905,2909..2917,2924..2929,2936..2941,2945..2953, 2960..2965,2969..2974,3011..3016,3023..3025,3035..3037) /gene="LOC106080855" /note="RPB1 - RPB2 interface [polypeptide binding]; other site" /db_xref="CDD:259848" misc_feature order(518..559,572..574,689..766,1163..1222,1334..1354, 1361..1387,1442..1492,1496..1510) /gene="LOC106080855" /note="clamp; other site" /db_xref="CDD:259848" misc_feature order(572..586,677..679,1214..1216,1220..1222,1238..1255, 1259..1267,1271..1276,1283..1285,1295..1297,1343..1345, 1352..1357,1364..1369,1394..1411,1418..1435,1439..1441, 1454..1456,1469..1471,1682..1684,1691..1693,1703..1714, 1718..1726) /gene="LOC106080855" /note="RPB1-TFIIB interface [polypeptide binding]; other site" /db_xref="CDD:259848" misc_feature order(653..655,662..664,683..685,692..694) /gene="LOC106080855" /note="Zn-binding [ion binding]; other site" /db_xref="CDD:259848" misc_feature order(752..757,1466..1468,1481..1483,1502..1504, 1520..1522,1808..1816,1913..1915,1919..1921,1925..1927, 3002..3007) /gene="LOC106080855" /note="active site region [active]" /db_xref="CDD:259848" misc_feature 3116..3667 /gene="LOC106080855" /note="RNA polymerase Rpb1, domain 6; Region: RNA_pol_Rpb1_6; pfam04992" /db_xref="CDD:461511" misc_feature 3602..4858 /gene="LOC106080855" /note="Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain; Region: RNAP_II_Rpb1_C; cd02584" /db_xref="CDD:132720" misc_feature order(3659..3664,3674..3676,3683..3685,4832..4834, 4841..4852,4856..4858) /gene="LOC106080855" /note="Rpb1 - Rpb6 interaction site [polypeptide binding]; other site" /db_xref="CDD:132720" misc_feature order(3674..3766,3770..3862,3878..3922,4328..4330, 4358..4390,4406..4591,4598..4657,4661..4705) /gene="LOC106080855" /note="cleft [active]" /db_xref="CDD:132720" misc_feature order(3686..3688,3695..3697,4298..4300,4310..4312, 4748..4750,4778..4786,4802..4807,4811..4813,4817..4819, 4832..4834) /gene="LOC106080855" /note="Rpb1 - Rpb2 interaction site [polypeptide binding]; other site" /db_xref="CDD:132720" misc_feature order(3821..3823,4676..4678,4727..4732,4739..4741) /gene="LOC106080855" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:132720" misc_feature order(4472..4474,4490..4495,4499..4501,4529..4549, 4553..4555,4613..4615,4646..4651,4655..4657) /gene="LOC106080855" /note="Rpb1 - Rpb5 interaction site [polypeptide binding]; other site" /db_xref="CDD:132720" misc_feature 4703..4828 /gene="LOC106080855" /note="clamp [active]" /db_xref="CDD:132720" misc_feature <5786..>6127 /gene="LOC106080855" /note="envelope glycoprotein I; Provisional; Region: PHA03291" /db_xref="CDD:223033" polyA_site 6680 /gene="LOC106080855" /experiment="COORDINATES: polyA evidence [ECO:0006239]" ORIGIN 1 agaagaagaa gacgtgcttt attttccaga cggctgccac aacctgctgc gttcgtttga 61 gaaagaaaaa ctgaaaacct ttgaaaagcc ggaaaactct tcaaactaat cacgatttaa 121 atccttcgac aaatagcaat gagattccag taaaaattga ttggaaaatt tgggattttc 181 gcgtgaaaat tcattccaaa gttctttgtt tcgtggggtt tgtgaaattc atttcatctc 241 acgacgcaac gacaacgaaa aacgaacaag cacgaagaac taagcagaaa cgcatataga 301 gaagtgccag cggagtctca aacttttggt tggctgcagc tggcagtaag ggaaagtttt 361 actggggaac agacctcgac tctggaaagc cccaaatttt gtgacgaaca atttagcact 421 tttcggtgta tcatactaag tagacaagcc attcaacatg gctacaaacg attcaaaggc 481 cccactgcgg caagtaaagc gtgtgcagtt tggtatcctt tccccagatg aaattcgacg 541 tatgtccgtc accgagggtg gtgtccaatt tgccgaaact atggaaggcg gccgtcctaa 601 attgggtggg ttgatggacc ctcgtcaggg tgttatcgat cgaacatcaa gatgtcaaac 661 ctgtgctggt aacatgacgg agtgccctgg acatttcggc catattgatt tagccaaacc 721 tgtttttcac attggtttca taaccaaaac aatcaaaatt ttacgttgcg tttgttttta 781 ttgctccaaa atgttggtat cgccgtcaaa tccaaaaatc aaagaagtgg ttttaaaaac 841 aaaaggtcag ccacgcaaac gtttggccta tgtttatgat ttgtgtaaag gtaaaaagat 901 ttgcgagggt ggcgaagata tggatatgac aaaagatgga cagccggctg atcctaataa 961 aaaacctgga catggtggtt gcggtcatta tcaaccatct cttcgtagaa cgggactgga 1021 tttaacggca gaatggaaac atgttaatga agattcacag gagaaaaaga ttcaagttac 1081 cgctgaacga gtatgggaaa ttctaaaaca cattacagat gaagagtgtt ttgttatggg 1141 tatggatcca aagtatgcac gccctgattg gatgattgtt accgttttac ccgttccacc 1201 tctggccgtc agacctgctg tcgtcatgtt tggtgcagcc aagaatcagg acgatttaac 1261 tcacaaactt tcggatatca taaaggccaa taatgaattg cgtaaaaatg aggcatgtgg 1321 tgcggctgcc catgtgattc tggaaaatat aaaaatgttg cagtttcacg ttgccacact 1381 ggtcgataac gatatgcctg gtatgcctag ggctatgcaa aagtcgggca aaccactaaa 1441 agctatcaaa tcccgcttga agggtaaaga aggacgtatt cgtggtaatt tgatgggaaa 1501 gcgtgttgat ttctcagcac gtactgtcat tactcccgat ccaaatttgc gtattgatca 1561 ggtcggtgta ccgcgctcca ttgcacaaaa tttaactttc ccggaattag taacaccgtt 1621 taatatagat cgtatgcaag agctggtacg tcgtggcaac tctcaatatc caggagctaa 1681 atatattgtg cgtgacaatg gcgaacgtat tgatctgcgt ttccatccaa aaccatccga 1741 tttgcattta caatgtggct ataaagtgga acggcatctg cgtgacgatg atttggttat 1801 tttcaatcgc cagcccactc tacacaaaat gagtatgatg ggtcatcgag ttaaagtttt 1861 gccatggtca acgtttcgta tgaacttgtc ttgtacttcc ccatacaatg ctgattttga 1921 tggagacgaa atgaacttgc atgtaccgca atctatggaa acaagagcgg aagtggaaaa 1981 cattcacgtg acaccgcgac aaattattac gccacaggct aacaaacccg tcatgggtat 2041 tgtgcaggat accttgactg ctgtacgtaa aatgacaaaa cgtgatgtct tcataacccg 2101 tgaacaaatg atgaatctgt tgatgttctt gcccacttgg gatggcaaaa tgccccaacc 2161 ttgtattcta aagcctaaac cattgtggac gggcaaacaa atttttacac taattattcc 2221 cggcaatgta aatatgatac gtactcactc cacccatccc gacgatgaag atgacggccc 2281 ctacaaatgg atttcacccg gtgacacgaa agtaatggta gagcatggcg aattgattat 2341 gggcatttta tgtaaaaaga ccctgggtac ctctgctggt tctttgcttc acattgtttt 2401 cttggaatta ggtcacgaaa ttgctggtcg cttctacggt aacattcaga ctgtcattaa 2461 caattggctg ttgttggagg gtcacagtat cggtattggt gacacaattg ctgatcctca 2521 gacctataac gagattcaga tggccattaa gaaagctaaa gacgatgtca tcaacgttat 2581 tcaaaaagcc cacaacatgg aattggaacc cacacccggc aatactttac gtcagacttt 2641 cgagaaccaa gtaaaccgta ttctaaacga tgctcgtgac aaaactggcg gatctgctaa 2701 gaaatcattg actgaataca acagtttaaa ggctatggtg gtgtcgggtt cgaagggctc 2761 caacattaat atctcccagg ttattgcttg cgtaggtcag cagaacgttg aaggtaaacg 2821 cattccctat ggtttccgta agcgcacctt gccccacttc atcaaagatg attacggtcc 2881 tgagtccaga ggcttcgtgg aaaactcata tcttgccggc ttgaccccat ccgaatttta 2941 ttttcacgct atgggtggtc gtgaaggtct tatcgatact gctgtaaaaa ctgctgaaac 3001 tggttatatt cagcgtcgtc ttataaaggc tatggaatct gtaatggtaa actatgacgg 3061 caccgtacgt aattcagtgg gccagcttat tcagttacgt tacggcgaag atggcttggc 3121 tggagaaaca gtggagttcc agaatttgcc taccgttaaa ttgtccaaca aatcctttga 3181 gaagagattc aaatttgatt ggtccaatga gagatacatg cgaaaggttt tcacagacga 3241 ggtcataaaa gaattgagcg agagtggcaa tgctctgccc gagttggaga tagagtggga 3301 tcagctgtgt cgcgatcgag aagcgttgcg agaaattttc cctaatggtg attcaaaggt 3361 tgtattgcct tgcaatttgc agagaatgat ttggaatgtg cagaaaattt tccatattaa 3421 taaacgcatg cctactgatt tgtcaccttt gagggtgatt aatggtgttc gcgaccttct 3481 gcagcgttgt gtaattgtgg tgggtaatga tcgtctctcc aagcaggcca acgaaaatgc 3541 caccctgctt ttccagtgtc tggtaagatc cactttatgc acaaagtatg ttgccgaaga 3601 gttccgcttg tctacagagg cttttgagtg gttgatagga gaaatcgaaa ccagattcca 3661 acaggcccag gctaatcctg gggagatggt gggcgcctta gccgctcaga gtttgggcga 3721 gcctgccact cagatgacac tgaacacttt ccattttgct ggtgtatctt caaagaacgt 3781 aaccttgggc gtaccccgtt tgaaggaaat tattaacatt tccaaaaagc caaaagctcc 3841 ttctctcacc gtctttttga cgggtggtgc tgccagagat gccgagaaag ccaagaacgt 3901 gttgtgccgg ctggaacaca ccacactgcg caaagttacc gccaatacgg ccatctacta 3961 tgaccccgat ccccaacgaa ctgtcattgc cgaggaccag gagttcgtca atgtctacta 4021 tgaaatgcct gactttgatc caacgcgcat ttcgccatgg ctgctacgta ttgaattgga 4081 tcgcaaacgt atgacagata agaagttaac tatggagcaa atcgctgaga aaatcaatgc 4141 cggctttggc gatgacctca attgtatttt caatgatgac aatgccgata agctggtttt 4201 acgtatacgt atcatgaata atgaagagaa caaattccaa gacgaagatg aagcggtcga 4261 caaaatggaa gacgatatgt tccttcgctg cattgaggca aatatgttgt ctgacatgac 4321 actgcagggt atagaggcca ttggcaaagt gtacatgcat ttaccacaaa cggacagtaa 4381 gaagcgtatt atcatcactg agactggtga atttaaagct attggtgaat ggttgctgga 4441 aactgatggt acttctatga tgaaagttct ttcggaaaga gatgtcgatc ctgtgagaac 4501 ctcctccaac gatatttgtg agattttcca ggtgttgggt atcgaagctg tgcgaaaatc 4561 tgttgaaaag gaaatgaatg ctgtgctgca gttctatggc ctttatgtaa actatcgaca 4621 tttggccttg ttgtgtgacg taatgacagc taagggacat ttgatggcta tcacacgtca 4681 cggtatcaac agacaagata ctggtgctct tatgagatgt tcgttcgaag aaactgttga 4741 cgtgttgttg gatgcttcag ctcatgctga gacagatcct atgagaggtg tatcggaaaa 4801 tatcattatg ggacagttgc caaaaatggg aacaggctgc tttgatttac tcttggacgc 4861 agaaaaatgt cgttatggca ttgaaattgc caacaccatg ggctcgagca ttttaggtgg 4921 gtcgggtatg ttctttggtg cagtatctac gcctagcatg tcaccaccaa tgacgccatg 4981 gcaaaattgt ggaactccaa gatatttttc tccttctggt caaatgagtg gtatgacacc 5041 tggtggtccc agtttttcgc catctgcagc ttcagaggct tctggtatgt cgccaagttg 5101 gtcaccagca catcccggct cgtcgcccag ttctcctggt ccaccaatgt cgccattttt 5161 ccctccatcg cccagtgttt cgccttcata ttcgccaact agccccactt atacagcgtc 5221 atcgccagga ggagcttcac caagctattc accacttagt cccagctatt cgccgacaag 5281 tccagcgttt ggttcaacat cgcctcgtta ttcttcaaca actcccaatt ttaatccaca 5341 atcaacgggt tattctccat cgaatagtgg ctattcacca tcatctccgg tttattctcc 5401 cacttctccc ttccatcatt cttcaagtcc atcgtatacg ggcagcggtg gttccaatat 5461 gtattctcca acgagtgctt attcgccaac ttcttcaaac tattcaccaa attccccatc 5521 atattcccca acttctccct cgtactcgcc ctcaagcccc tcttattcgc cttcttctcc 5581 ttgctattct ccaacttcac catcatattc tccctcttcg ccaacttata cgcctgttac 5641 accttcatat tctccatcat caccacatta ttcctcttcg cctcactact ctccagcttc 5701 accagcatat tctcaaactg gtgtaaaata ttcgccgact tcaccaaaat attcgccacc 5761 ttcaccttcg tacgatggtt cagcgggatc accgcaatac acgccaggat cgccgcaata 5821 ttccccagct tcacctaaat attccccgac gtctccgctg tattcgccca cctcgccaca 5881 gcattcaccg gccaaccagt acagccctac cggttcaagc tattcggcca catcgccccg 5941 ttactcgccc aataatatgt cggtttattc acctggtagt acaaaatatt cgccaacatc 6001 acccacgtac acaccaacac gtaattattc gccggcttct cccatgtact cacccacggc 6061 accatcgcac ggttattcac cgactagtcc agcctactcg cctagtagtc ccacttatga 6121 agacagcgaa gaataggatt tcgatgcgaa aattatttaa aaatgtcgta atagacgttg 6181 atgttcacac ttggtttttc tactactaga cgaagaagaa cgcattttcc atatcatcca 6241 taaagttgat gatatttaaa tcaattatat gcacacacac acacacacac acgcacgact 6301 agtgtgtaag ttttaacaaa ataacgaaga ggagaagtac atatattctt attgtatgga 6361 ttgtaataag aggttctcag ttattcgagt accatttcag attgtttttt attatcgatt 6421 ttcttgtcta tgtatttctt taaaaacaat acgtatgtta tccaacagta atgacgtcat 6481 aatcaatata gtataataag gatatacaac acaataaaag tgttttcttg tctccgacat 6541 ttctcggaag gagacattgg caattaatat ttcgtttgat tcgtttggaa tatagtttaa 6601 agtatttaat attttaaatt ttataaaaac aacatatatg cataccaaaa taaacacgta 6661 aatcgtctgt aaacgtcaaa