ASFVdb The African Swine Fever Virus Database
Strain
Benin_1997 (Region: Benin;  Strain: Benin 97/1;  Date: 1997)
Gene
RNA polymerase subunit 1
Description
Annotated in NCBI,  VOCs Family: RNApol1
GenBank Accession
Full name
DNA-directed RNA polymerase subunit       + More
Probable DNA-directed RNA polymerase subunit 1 homolog      
 

Sequence

CDS
ATGGAGGCTGGATATGCCGAAATAGCCGCCGTTCAGTTCAATATTGCCGGTGACAATGACCATAAGAGGCAAGGCGTTATGGAGGTTACCATTTCTAATTTATTTGAGGGCACCCTTCCCGCCGAGGGGGGTATCTATGATGCGCGAATGGGAACCACCGATCACCATTATAAATGCATCACTTGCTCACACCAGCGCAAGCAATGTATGGGACACCCTGGGATACTGCAGATGCATGCTCCGGTGCTTCAGCCGCTCTTCATCGCCGAAATACGACGATGGTTAAGGGTTATATGCCTCAACTGCGGGGCTCCCATTGTTGACCTAAAGAGGTACGAGCATCTTATTAGGCCTAAGCGTCTTATTGAAGCGGCTTCAAGCCAAACCGAAGGAAAGCAGTGCTACGTCTGTAAGGCAGTACACCCCAAAATTGTTAAGGACTCGGAAGATTATTTTACCTTTTGGGTGGATCAGCAGGGCAAGATTGACAAACTGTACCCGCAGATCATCAGAGAGATTTTTTCGCGCGTAACCTACGACACCGTTGTAAAACTGGGGCGAAGTAAAAACTCCCATCCCGAAAAACTTGTGCTTAAGGCCATTCAGATCCCCCCCATCAGCATACGACCTGGCATCAGATTGGGAATCGGGTCAGGCCCCCAAAGCTTTCACGACATTAATAACGTGATCCAGTATCTGGTTCGAAAGAATCTGCTGATCCCGAAGGACCTACAAATCGTGCGCGGCCAAAAAATACCTTTAAATATTGACCGCAATTTGCAAACCATACAGCAACTTTACTATAACTTTTTGTTGGATTCCGTTTCCACCACCGCAACCCAGGGAGGCACGGGAAAGCGTGGGATCGTCATGGGGGCCCGCCCCGCTCCCTCTATCATGCGAAGACTTCCTCGCAAGGAGGGAAGAATTCGTAAATCCCTACTGGGCAGCCAGGTATGGTCGATCAGCCGGTCCACCATCTGCGGGAACTCAGACCTTCACCTGGACGAGGTTGGCTATCCCATTTCCTTTGCACGAACGCTGCAAGTTGCGGAAACAGTGCAACATTATAATATTAATAGATTAATGCCCTATTTTTTAAATGGAAAGCGCCAGTACCCTGGTTGTTCAAGAGTGTATAAGCAAATAACACAATCCGTTCACGATATTGAGGGTCTCAAACAAGACTTTAGGCTGGAGGTAGGAGACATCCTTTACCGTGATGTCGTCACTGGCGACGTCGCGTTTTTTAATCGCCAGCCTTCTCTCGAACGAAGCAGCATAGGGGTTCACCGGATTGTCGTTCTTGAAAACCCAAAAATTTCTACGTTTCAAATGAATGTCAGCGCATGTGCCTGGTATAATGCGGACTTTGATGGGGATCAGATGAATCTCTGGGTTCCCTGGAGCGTCATGAGCCGCGTTGAGGCCGAACTACTTTGTTCTGTGCGAAACTGGTTCATTTCCACGAAGAGTTCGGGTCCCGTTAATGGGCAGGTGCAGGATTCCACAGTGGGAAGCTTTTTGCTTACACGCACGAACACCCCCATGGGGAAAAATGTGATGAACAAACTGCACGCCATGGGATTGTTTCAAACAACCCAAACGGACCCACCTTGTTTTGCCAACTACTCCCCAACTGACCTGCTGGATGGCAAATCGGTTGTATCTATGCTACTGAAGCAGACCCCCATCAATTATCAACGAGCCCCCACATGGTACTCAGAAGTGTATGCGCCCTACATGCATTATAACAAGCAGGACATCTCTACACAAATACGCAACGGCGAACTCATTGAAGGCGTCCTTGACAAAAAGGCCGTCGGAGCGGGCTCCTCCGGTGGAATCTATCACCTTATTTCGCGTAGATATGGGCCGCAGCAGGCCTTGAAAATGATATTTGCGACCCAGCAGCTCGCCCTGAACTACGTGCGCAACGCCGGATTCACAGTGTCCACGGCCGACATGCTCCTAACCCCGGAGGCACATCAGGAGGTCCAAGAAATTATCAATGAACTGCTGCTTGAGTCGGAGGAAATAAACAACCGGCTGCTTCATGGAGACATCATGCCGCCTATAGGCCTGACAACGCATGACTTCTACGAAAAATTGCAGCTGAATGCGCTTAAGTTTCCCGATAGGATTTTAAAGCCGATTATGAATTCCATTAATCCGGAAACCAATGGGCTTTTTCAGATGGTGGCCACTGGCGCCAAGGGCTCAAACCCCAATATGATTCACATCATGGCGGGCATCGGCCAAATTGAAATTAATACACAACGCATTCAACCCCAGTTTTCCTTCGGCAGGACCCTGGTGTACTACCCCAGGTTTGCCCTGGAGGCGCAGGCCTACGGGTTCATCTGCAACAGCTATATTGCGGGCCTTACCTCCCCTGAATTTATCTTTGGGGAAATGAATGGAAGATTCGACTTGATCAACAAAGCATTATCGACATCATCCACAGGCTATGCCAACCGTAAAGCCATCTTTGGCCTTCAATCCTGTATTGTGGATTATTACCGACGGGTTTCCATCGATACTCGTCTTGTGCAGCAGTTGTACGGAGAGGATGGCCTTGATGCACGCCAGCTCGAAACCGTACGGTTTGAAACCATCATGCTGTCGGACCAGGAACTTGAGGACAAATTCAAGTACACCGGGATACAATCCCCCTTGTTTGAAGAAGAATTTTCACGCCTTAAAAAGGATAGAGATAAATATCGACAGATCTTCCTAAACGTCGAAAATTTTAATTTCAGCCAGCTGCTTACAGATGTTAGACAGGTGCCGGTAAACGTGGCCAGCATCGTAAAAAACATTCTACTGAGCTCCACCAGTGGCGTGCTTCCCTTCGACGAAAAAAGTATTCTACAAAAATACGCGATGGTCAAAACGTTTTGCAAAAATCTTCCATACGTGTTTATTAACAACATTCAGGAACGACTGCAAACGCCCATACCCGTTTATCTTAAACGAGCTGCCGCTCTGATGCGCATGCTTATTCGCATCGAACTGGCAACCGTTAAAACATTAAACATTACCTGCGAGCAGATGAGTGCCATCCTGGACCTCATAAGGCTACAATATACTCAAAGTCTTATTAACTACGGTGAGGCGGTGGGAATCCTGGCGGCGCAGTCCGTATCAGAACCCTTGACGCAATATATGCTGGACTCCCACCACCGGTCCGTGGCCGGGGGAACCAACAAGTCGGGAATTGTGCGGCCCCAGGAGATCTTTAGCGCGAAGCCCGTAGAGGCTGAACAATCCTCTGAAATGCTTTTACGTCTAAAGAACCCGGAAGTGGAAACAAATAAAACATATGCGCAAGAAATTGCTAACAGCATAGAGCTTATAACGTTCGAACGGTTGATACTGCAGTGGCACCTATTGTACGAAACGTATTCAAGCACAAAAAAAAATGTGATGTACCCCGATTTTGCAAGTGATGTGGAATGGATGACGGATTTTCTGGAAAACCATCCTCTACTACAGCCCCCGGAGGATATTGCAAACTGGTGTATCCGCTTGGAATTAAATAAAACAACCATGATATTAAAAAGCATTAGTCTAGAAAGTATTATTAATAGTCTAAGAGCTAAGCACCCCAACACCTACATCATGCATTCTGTGGAAAACACGGCCTCAGGTATTCCCATCATTATTCGCATATATCTACGGGAAAGCGCCTTTAGACGCAGTACTAATACCCGAATGGCTACGGATGAAAAAATCGCCGTAAATGTGGTGGATAAACTATTAAATAGCACGATTAGAGGAATACCAGGCATCAAAAATGCGAATGTTGTTAAGCTTATGCGCCACCGTGTGGATGCCCAGGGAAAGCTGGTAAGACTAGATAATATCTACGCCATCAAAACAAACGGGACTAATATTTTTGGCGCAATGCTTGATGATAACATCGACCCATACACCATCGTGTCGTCCTCTATAGGAGACACCATGGAGCTTTATGGCATAGAAGCGGCCCGACAAAAAATTATTAGTGAAATTAGAACGGTTATGGGGGACAAGGGTCCCAACCATCGTCATTTACTCATGTACGCAGATCTCATGACAAGAACGGGACAGGTCACCTCTCTAGAAAAGGCAGGGCTTAATGCAAGAGAGCCTTCCAACGTGTTGTTGCGAATGGCCTTGTCGTCTCCAGTTCAGGTCTTGACAGATGCTGCGGTTGACTCCGCCGTGAATCCCATTTACGGTATTGCCGCGCCTACCCTTATGGGCTCTGTTCCTCGCATAGGGACCATGTACTCTGACATCATTATGGATGAAAAATATATTACGGAAAATTATAAAAGTGTTGATTCCATGATTGACATGTTATAG
Protein
MEAGYAEIAAVQFNIAGDNDHKRQGVMEVTISNLFEGTLPAEGGIYDARMGTTDHHYKCITCSHQRKQCMGHPGILQMHAPVLQPLFIAEIRRWLRVICLNCGAPIVDLKRYEHLIRPKRLIEAASSQTEGKQCYVCKAVHPKIVKDSEDYFTFWVDQQGKIDKLYPQIIREIFSRVTYDTVVKLGRSKNSHPEKLVLKAIQIPPISIRPGIRLGIGSGPQSFHDINNVIQYLVRKNLLIPKDLQIVRGQKIPLNIDRNLQTIQQLYYNFLLDSVSTTATQGGTGKRGIVMGARPAPSIMRRLPRKEGRIRKSLLGSQVWSISRSTICGNSDLHLDEVGYPISFARTLQVAETVQHYNINRLMPYFLNGKRQYPGCSRVYKQITQSVHDIEGLKQDFRLEVGDILYRDVVTGDVAFFNRQPSLERSSIGVHRIVVLENPKISTFQMNVSACAWYNADFDGDQMNLWVPWSVMSRVEAELLCSVRNWFISTKSSGPVNGQVQDSTVGSFLLTRTNTPMGKNVMNKLHAMGLFQTTQTDPPCFANYSPTDLLDGKSVVSMLLKQTPINYQRAPTWYSEVYAPYMHYNKQDISTQIRNGELIEGVLDKKAVGAGSSGGIYHLISRRYGPQQALKMIFATQQLALNYVRNAGFTVSTADMLLTPEAHQEVQEIINELLLESEEINNRLLHGDIMPPIGLTTHDFYEKLQLNALKFPDRILKPIMNSINPETNGLFQMVATGAKGSNPNMIHIMAGIGQIEINTQRIQPQFSFGRTLVYYPRFALEAQAYGFICNSYIAGLTSPEFIFGEMNGRFDLINKALSTSSTGYANRKAIFGLQSCIVDYYRRVSIDTRLVQQLYGEDGLDARQLETVRFETIMLSDQELEDKFKYTGIQSPLFEEEFSRLKKDRDKYRQIFLNVENFNFSQLLTDVRQVPVNVASIVKNILLSSTSGVLPFDEKSILQKYAMVKTFCKNLPYVFINNIQERLQTPIPVYLKRAAALMRMLIRIELATVKTLNITCEQMSAILDLIRLQYTQSLINYGEAVGILAAQSVSEPLTQYMLDSHHRSVAGGTNKSGIVRPQEIFSAKPVEAEQSSEMLLRLKNPEVETNKTYAQEIANSIELITFERLILQWHLLYETYSSTKKNVMYPDFASDVEWMTDFLENHPLLQPPEDIANWCIRLELNKTTMILKSISLESIINSLRAKHPNTYIMHSVENTASGIPIIIRIYLRESAFRRSTNTRMATDEKIAVNVVDKLLNSTIRGIPGIKNANVVKLMRHRVDAQGKLVRLDNIYAIKTNGTNIFGAMLDDNIDPYTIVSSSIGDTMELYGIEAARQKIISEIRTVMGDKGPNHRHLLMYADLMTRTGQVTSLEKAGLNAREPSNVLLRMALSSPVQVLTDAAVDSAVNPIYGIAAPTLMGSVPRIGTMYSDIIMDEKYITENYKSVDSMIDML

Summary

Function
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.
Component of the DNA-dependent RNA polymerase that catalyzes the transcription in the cytoplasm of viral DNA into RNA using the four ribonucleoside triphosphates as substrates. Largest and catalytic component of RNA polymerase which synthesizes mRNA precursors and many functional non-coding RNAs. Forms the polymerase active center together with the second largest subunit. Part of the core element with the central large cleft, the clamp element that moves to open and close the cleft and the jaws that are thought to grab the incoming DNA template (By similarity).
Catalytic Activity
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1)
Subunit
Component of the RNA polymerase that consists of at least 6 subunits.
Similarity
Belongs to the RNA polymerase beta' chain family.
Keywords
Complete proteome   DNA-directed RNA polymerase   Nucleotidyltransferase   Transcription   Transferase   Reference proteome  
Feature
chain  Probable DNA-directed RNA polymerase subunit 1 homolog
EC Number
2.7.7.6
EMBL
AM712239    CAN10198.1    FN557520    CBH29199.1    AM712240    CAN10448.1    + More
KM111294    AJL34112.1    KM262844    KM262845    KM102979    KP055815    KX354450    AIY22290.1    AIY22448.1    AJZ77039.1    AKO62780.1    AOO54449.1    KM111295    MH025916    MH025917    MH025918    MH025919    MH025920    AJL34277.1    AXB49327.1    AXB49501.1    AXB49673.1    AXB49844.1    AXB50017.1    AY261366    AY261363    AY261360    Z21489    U18466    FR682468    CBW46765.1    MG939583    MG939588    LS478113    AXZ95873.1    AXZ96156.1    SPS73522.1    AY261361    X71982    HG719890    CDJ58856.1    MJFZ01000606    RAW26909.1    BEGY01000127    GAX84485.1    HG672961    CDI82946.1    HG723336    CDJ65915.1    HG674029    CDJ38757.1    KZ772742    PTQ35585.1    HG713088    CDJ52196.1    DQ223185    ABA64469.1    DQ020658    AAY89364.1    KI694488    ETM39671.1    KI669605    ETN04168.1    KI681241    ETL86504.1    RFLC01000091    RMD67105.1    PCAH01000013    MBT97111.1    ANIZ01004714    ETI29912.1    BDQV01001177    GAY69314.1    NZER01000235    MAH47815.1    KB867630    EOD12973.1    RFJO01000017    RME55349.1    DF836539    GAN09200.1    KZ406433    PIO53789.1    ABEU02000014    PNR41118.1    DS545340    EDQ49860.1    KK795258    KDO36243.1    KN716409    KJH45411.1    UYYA01005215    VDM64360.1    KE124061    EPB83723.1    KB866687    EOD16843.1    KB867443    EOD13395.1    LN733683    CEP17467.1    GCHU01012411    JAG87453.1    QKWP01002953    RIB01748.1    MNPL01005667    OQR75863.1    MIGC01003198    PHJ19813.1    QGKV01239088    RQL86478.1    CM010628    RID77342.1    KI657839    ETN84908.1   
Pfam
PF05000   RNA_pol_Rpb1_4
PF04983   RNA_pol_Rpb1_3
PF04998   RNA_pol_Rpb1_5
PF04990   RNA_pol_Rpb1_7
PF04997   RNA_pol_Rpb1_1
PF00623   RNA_pol_Rpb1_2
PF04992   RNA_pol_Rpb1_6
PF05001   RNA_pol_Rpb1_R
PF00488   MutS_V
PF05190   MutS_IV
PF00264   Tyrosinase
Interpro
IPR007066   RNA_pol_Rpb1_3
IPR000722   RNA_pol_asu
IPR007080   RNA_pol_Rpb1_1
IPR006592   RNA_pol_N
IPR007081   RNA_pol_Rpb1_5
IPR038120   Rpb1_funnel_sf
IPR038593   RNA_pol_Rpb1_7_sf
IPR007083   RNA_pol_Rpb1_4
IPR007073   RNA_pol_Rpb1_7
IPR007075   RNA_pol_Rpb1_6
IPR000684   RNA_pol_II_repeat_euk
IPR015699   DNA-dir_RNA_pol1_lsu
IPR008922   Unchr_di-copper_centre
IPR036187   DNA_mismatch_repair_MutS_sf
IPR002227   Tyrosinase_Cu-bd
IPR007861   DNA_mismatch_repair_MutS_clamp
IPR027417   P-loop_NTPase
IPR000432   DNA_mismatch_repair_MutS_C
IPR035697   RNAP_III_RPC1_N
IPR035698   RNAP_III_Rpc1_C
SUPFAM
SSF48334   SSF48334
SSF52540   SSF52540
SSF48056   SSF48056
PDB
6J51     E-value=4.64905e-133,     Score=1221

Ontologies

KEGG

Subcellular Location

From MSLVP
Cytoplasm

Topology

Length:
1450
Number of predicted TMHs:
0
Exp number of AAs in TMHs:
0.0697
Exp number, first 60 AAs:
0.00071
Total prob of N-in:
0.00043
outside
1  -  1450
 
 

Population Genetic Test Statistics

Pi
0.0282275
Theta
0.0375462
Tajima's D
-0.8528218
CLR
0.000076
Interpretation
No evidence of Selection

Genomic alignment in the CDS region

 
 

Multiple alignment of Orthologues

 
 

Gene Tree

 
 

Orthologous in Strains

Strain Availability Status Gene
Spain_BA71_1971 Protein
AKO62780.1
China_AnhuiXCGQ_2018 Protein
AYW34070.1
China_ASFV-SY18_2018 Protein
AKO62780.1
Poland_Pol16_20186_o7_2016-2017 Protein
AXZ95873.1
Poland_Pol16_20538_o9_2016-2017 Protein
CBW46765.1
Poland_Pol16_20540_o10_2016-2017 Protein
CBW46765.1
Poland_Pol16_29413_o23_2016-2017 Protein
CBW46765.1
Poland_Pol17_03029_C201_2016-2017 Protein
CBW46765.1
Poland_Pol17_04461_C210_2016-2017 Protein
AXZ96156.1
Poland_Pol17_05838_C220_2016-2017 Protein
CBW46765.1
Poland_ASFV_POL_Podlaskie_2015 Protein
CBW46765.1
Uganda_R8_2015 Protein
AXB49327.1
Uganda_R7_2015 Protein
AXB49501.1
Uganda_R25_2015 Protein
AXB49673.1
Uganda_N10_2015 Protein
AXB49844.1
Uganda_R35_2015 Protein
AXB50017.1
Estonia_2014 Protein
SPS73522.1
Italy_26544_OG10_2010 Protein
AJZ77039.1
Italy_47_Ss_2008_2008 Protein
AOO54449.1
Portugal_OURT_88.3_1988 Protein
CAN10448.1
Spain_E75_1975 Protein
CBH29199.1
Russia_Georgia_2007 Protein
Protein
CBW46765.1
CBW46765.1
Kenya_Tk1_2005 Protein
AJL34112.1
Kenya_Bus_2006 Protein
AJL34277.1
Russia_Odintsovo_2014 Protein
CBW46765.1
Portugal_L60_1960 Protein
AIY22290.1
Portugal_NHV_1968 Protein
AIY22448.1
Russia_Kashino_2013 Protein
CBW46765.1
Benin_1997 Protein
CAN10198.1
South_Africa_KNP_Pretorisuskop_1996 Protein
CBW46765.1
South_Africa_MGR_Mkuzi_1979 Protein
CBW46765.1
Malawi_Lil_1983 Protein
CBW46765.1
Kenya_1950 Protein
CBW46765.1
Namibia_Warthog_1980 Protein
CBW46765.1
South_Africa_Warmbaths_1987 Protein
CBW46765.1
Malawi_Tengani_1962 Protein
CBW46765.1
China_HLJ_2018 Protein
QBH90587.1
China_LN_2018 Protein
QBH90772.1
China_wbBS01_2018 Protein
QDL88130.1
Ukraine_Kyiv_2014 Protein
Protein
Protein
Protein
QED21693.1
QED21694.1
QED21695.1
QED21696.1
Belgium_Etalle_wb_2018 Protein
QED90542.1
Lithuania_LT14_2014 Protein
QEY87905.1
South_Africa_1985    
South_Africa_2_2008    
Zambia_LIV_1983    
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