DRSC/TRiP Functional Genomics Resources

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Protein Alignment RpII215 and Polr1a

DIOPT Version :9

Sequence 1:NP_511124.1 Gene:RpII215 / 32100 FlyBaseID:FBgn0003277 Length:1887 Species:Drosophila melanogaster
Sequence 2:NP_113960.2 Gene:Polr1a / 83581 RGDID:620824 Length:1716 Species:Rattus norvegicus


Alignment Length:1797 Identity:464/1797 - (25%)
Similarity:749/1797 - (41%) Gaps:434/1797 - (24%)


- Green bases have known domain annotations that are detailed below.


  Fly    10 PLRQVKRVQFGILSPDEIRRMSVTE-GGVQFAETMEGGRPKLGGLMDPRQGVIDRTSRCQTCAGN 73
            |.|:::.:.||:.|.:|::::||.. ...::.:::  |.|...||.|...|..|....|.||..:
  Rat     8 PWRRLQGISFGMYSAEELKKLSVKSITNPRYVDSL--GNPSADGLYDLALGPADSKEVCSTCVQD 70

  Fly    74 MTECPGHFGHIDLAKPVFHIGFITKTIKILRCVCFYC---------------------------- 110
            ...|.||.|||||...|::.....|...:||..|..|                            
  Rat    71 FNNCSGHLGHIDLPLTVYNPLLFDKLYLLLRGSCLNCHMLTCPRAAIHLLVCQLKVLDVGALQAV 135

  Fly   111 -------SKMLVSPHNPKIKEI---------------VMKSRGQPRKRLAYVYDLCK-------- 145
                   |:.|....:|...||               ::.|:|      |:|.::|:        
  Rat   136 YELERILSRFLEETSDPSAFEIQEELEEYTSKILQNNLLGSQG------AHVKNVCESRSKLVAH 194

  Fly   146 ----------------GKTICEGGEDMDLT--------KENQQPD---PNKKPGHGGC------- 176
                            |:::.....:..||        |::.|.|   |...|...|.       
  Rat   195 FWKTHMAAKRCPHCKTGRSVVRKEHNSKLTITYPAMVHKKSGQKDAELPEGAPAAPGIDEAQMGK 259

  Fly   177 -GHYQPSIRRTGLDLTAEWKHQNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWM 240
             |:..||..:.  .|.|.||::.         .....::..|..|..|..|         .|...
  Rat   260 RGYLTPSSAQE--HLFAIWKNEG---------FFLNYLFSGLDDIGPESSF---------NPSMF 304

  Fly   241 IVTVLPVPPLAVRP------------AVVMFGAAKNQDDLTHKLSDIIKANNEL----------R 283
            .:..:.|||...||            ..|...|......|..||..::....:|          :
  Rat   305 FLDFIVVPPSRYRPINRLGDQMFTNGQTVNLQAVMKDAVLIRKLLAVMAQEQKLPCEMTEITIDK 369

  Fly   284 KNEASGAAAHVIQE------------NIKM-LQFHVATLVDNDM--------PGMPRAMQKSGKP 327
            :|::|||.......            ||.: ||.||..:.|:||        ||:.:.::|    
  Rat   370 ENDSSGAIDRSFLSLLPGQSLTDKLYNIWIRLQSHVNIVFDSDMDKLMLEKYPGIRQILEK---- 430

  Fly   328 LKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNID 392
                      |||..|.::||||||::||:||.||..:..:::|:|...|..||:|:.|||:|:.
  Rat   431 ----------KEGLFRKHMMGKRVDYAARSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNVQ 485

  Fly   393 RMQELVRRGNSQYPGAKYIVRDNGERIDL-------------RFHPKSSDLHLQCGYKVE-RHLR 443
            .:::.|..|.:.:|||..::.::|.|..|             :....|:.:....|.||. ||::
  Rat   486 ELRQAVINGPNVHPGASMVINEDGSRTALSAVDATQREAVAKQLLTPSTGIPKPQGAKVVCRHVK 550

  Fly   444 DDDLVIFNRQPTLHKMSMMGHRVKVLP-WSTFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEV 507
            :.|:::.|||||||:.|:..||..:|| ....|::.:....|||||||||||.|.|||...|||.
  Rat   551 NGDILLLNRQPTLHRPSIQAHRAHILPEEKVLRLHYANCKAYNADFDGDEMNAHFPQSELGRAEA 615

  Fly   508 ENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITREQVMNLLMFLPTWD----AKMPQ 568
            ..:..|.:|.:.|:..:|:.|::||.:.:...||.|..|.||||.|. |::....|    .|:..
  Rat   616 YVLACTDQQYLVPKDGQPLAGLIQDHMVSGANMTIRGCFFTREQYME-LVYRGLTDKVGRVKLFP 679

  Fly   569 PCILKPRPLWTGKQIFSLIIPGNVNMIRTHSTHPDEEDEGPYK-----------WI--------- 613
            |.||||.|||||||:.|.::   :|:|        .||..|..           |:         
  Rat   680 PAILKPFPLWTGKQVVSTLL---INII--------PEDYTPLNLTGKAKIGSKAWVKEKPRPVPD 733

  Fly   614 ----SPGDTKVMVEHGELIMGILCKKSLGTSAGSLLHICFLELGHDIAGRFYGNIQTVINNWL-L 673
                |..:::|::..|||:.|:|.|...|:||..|:|.|:...|.:.:||....:..:...:| |
  Rat   734 FDPDSMCESQVIIREGELLCGVLDKAHYGSSAYGLVHCCYEIYGGETSGRVLTCLARLFTAYLQL 798

  Fly   674 FEGHSIGIGDTIADPQTYNEIQQAIKKAK-------------------DDVINVIQKAHNMELEP 719
            :.|.::|:.|.:..|......|:.|:::.                   |::....|.|| :..:.
  Rat   799 YRGFTLGVEDILVKPNADVMRQRIIEESTQCGPRAVRAALNLPEAASCDEIQGKWQDAH-LGKDQ 862

  Fly   720 TPGNTLRQTFENKVNRILNDARDKTGGSAKKSLTEYNNLKAMVVSGSKGSNINISQVIACVGQQN 784
            ...|.:...|:.:||...|:................|||:.||.||:|||.:|..|:...:||..
  Rat   863 RDFNMIDMKFKEEVNHYSNEINKACMPFGLHRQFPENNLQMMVQSGAKGSTVNTMQISCLLGQIE 927

  Fly   785 VEGKRIPYGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAET 849
            :||:|.|.....::||.|...::.|.:.|||...:|.|:.|.||:||.|.|||||:||||||:.:
  Rat   928 LEGRRPPLMASGKSLPCFEPYEFTPRAGGFVTGRFLTGIRPPEFFFHCMAGREGLVDTAVKTSRS 992

  Fly   850 GYIQRRLIKAMESVMVNYDGTVRNSVGQLIQLRYGEDGLCGELVEFQNMPTVKLSNKSFEKRFKF 914
            ||:||.:||.:|.:::.||.|||:|.|.::|..||||||        ::|..:...   .|:|.|
  Rat   993 GYLQRCIIKHLEGLVIQYDLTVRDSDGSVVQFLYGEDGL--------DIPKTQFLQ---PKQFPF 1046

  Fly   915 DWSN-ERLMKKVFTDDVIKEMTDSSEAIQELEA--EWDRLVSDRDSLRQIFPNGESKVVLPCNLQ 976
            ..|| |.:||.....:|:.. .|..:.::...|  :|....|.....:..|.:...|:      |
  Rat  1047 LASNYEVIMKSKHLHEVLSR-ADPQKVLRHFRAIKKWHHRHSSALLRKGAFLSFSQKI------Q 1104

  Fly   977 RMIWNVQKIFHINKRLPTDLSPIRVIKGVKTLLERCVIVTGNDRISKQANENATLLFQ-----C- 1035
            ..:    |..::..:.....||     ..:.:|:          :..:.:|.:...:|     | 
  Rat  1105 AAV----KALNLEGKTQNGRSP-----ETQQMLQ----------MWHELDEQSRRKYQKRAAPCP 1150

  Fly  1036 -----LIRSTLCTKYVSEEFRLSTEAF--EW-----------------LVGEIETRFQQAQANPG 1076
                 :.|..:....|||.|....:.:  ||                 |...::.::|::..:||
  Rat  1151 DPSLSVWRPDIHFASVSETFEKKIDDYSQEWAAQAEKSHNRSELSLDRLRTLLQLKWQRSLCDPG 1215

  Fly  1077 EMVGALAAQSLGEPATQMTLNTFHFAGVSSKNVTLGVPRLKEIINI-SKKPKAP--SLTVFLTGG 1138
            |.||.|||||:|||:||||||||||||....|||||:|||:||:.: |...|.|  |:.||.|..
  Rat  1216 EAVGLLAAQSIGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMVASANIKTPMMSVPVFNTKK 1280

  Fly  1139 AARDAEKAKNVLCRL-EHTTLRKVTANTAIYYDPDPQRTVISE--DQEFVNVYYEM-----PD-- 1193
            |.|..:..|..|.|: ....|:||....:........:..:.|  .|...:.||:.     |:  
  Rat  1281 ALRRVKSLKKQLTRVCLGEVLQKVDIQESFCMGEKQNKFRVYELRFQFLPHAYYQQEKCLRPEDI 1345

  Fly  1194 --FDPTRISPWLLRI------------ELDRKRMTDKKLTMEQIA-------EKINVGFGEDLNC 1237
              |..||....|:..            .::.:|.|.|.|...:.:       |:.....|..::.
  Rat  1346 LHFMETRFFKLLMEAIKKKNSKASAFRSVNTRRATQKDLDDTEDSGRNRREEERDEEEEGNIVDA 1410

  Fly  1238 IFNDDNADKLVLRIRIMNNEENKFQDEDEAVDKMEDDM--------------------------- 1275
            ...:.:||....:.:....||..::.|:|..::.|:|:                           
  Rat  1411 EAEEGDADASDTKRKEKQEEEVDYESEEEGEEEEEEDVQEEENIKGEGAHQTHEPDEEEGSGLEE 1475

  Fly  1276 ------------------FLRCIEA-----NMLSDMTLQGIEAIG-KVYMHLP------------ 1304
                              ..|.|:|     :.:.|......|::. :|.:.||            
  Rat  1476 ESSQNPPRRHSRPQGAEAMERRIQAVRESHSFIEDYQYDTEESLWCQVTVKLPLMKINFDMSSLV 1540

  Fly  1305 ----------QTDSKKRIVITETGEFKAIGEWLLETDGTSMMKVLSERDV-DPIRTSSNDICEIF 1358
                      .|....|.::.||...|...|::|.|:|.::.::....:| |..|..||||..:.
  Rat  1541 VSLAHNAIVYTTKGITRCLLNETINSKNEKEFVLNTEGINLPELFKYSEVLDLRRLYSNDIHAVA 1605

  Fly  1359 QVLGIEAVRKSVEKEMNAVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCS 1423
            ...||||..:.:|||:..|...||:.|:.|||:|:.|.|..:|....:.|.|| :..:..|.:.:
  Rat  1606 NTYGIEAALRVIEKEIKDVFAVYGIAVDPRHLSLVADYMCFEGVYKPLNRFGI-QSSSSPLQQMT 1669

  Fly  1424 FEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTGCFDL 1465
            ||.:...|..|......|.::..|..:::|::.|.|||.|:|
  Rat  1670 FETSFQFLKQATMMGSHDELKSPSACLVVGKVVKGGTGLFEL 1711

Known Domains:


Indicated by green bases in alignment.

GeneSequenceDomainRegion External IDIdentity
RpII215NP_511124.1 PRK08566 14..887 CDD:236292 294/1072 (27%)
RNAP_II_RPB1_N 15..868 CDD:259848 283/1052 (27%)
RNA_pol_Rpb1_5 822..1420 CDD:282807 190/738 (26%)
RNA_pol_Rpb1_6 890..1071 CDD:282801 33/213 (15%)
RNAP_II_Rpb1_C 1050..1468 CDD:132720 137/543 (25%)
TCRP1 1602..1880 CDD:291605
RCR <1789..1864 CDD:304939
Polr1aNP_113960.2 RNAP_I_RPA1_N 16..1011 CDD:259844 283/1049 (27%)
RNA_pol_Rpb1_5 965..1666 CDD:398596 190/738 (26%)
Bridging helix. /evidence=ECO:0000250 968..980 7/11 (64%)
Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite 1368..1493 14/124 (11%)
Blue background indicates that the domain is not in the aligned region.


Information from Original Tools:


Tool Simple Score Weighted Score Original Tool Information
BLAST Result Score Score Type Cluster ID
Compara 00.000 Not matched by this tool.
Domainoid 00.000 Not matched by this tool.
eggNOG 1 0.900 - - E1_COG0086
Hieranoid 00.000 Not matched by this tool.
Homologene 00.000 Not matched by this tool.
Inparanoid 00.000 Not matched by this tool.
OMA 00.000 Not matched by this tool.
OrthoDB 1 1.010 - - D591636at2759
OrthoFinder 00.000 Not matched by this tool.
OrthoInspector 00.000 Not matched by this tool.
orthoMCL 00.000 Not matched by this tool.
Panther 00.000 Not matched by this tool.
Phylome 1 0.910 - -
SonicParanoid 00.000 Not matched by this tool.
SwiftOrtho 1 1.000 - -
TreeFam 00.000 Not matched by this tool.
43.820

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