1rthA - reference 1


Name                 reverse transcriptase												

Number of sequences              5
Alignment Length                 556
Longest Sequence                 541
Shortest Sequence                526
Average Percent Identity         42
Maximum Percent Identity         56
Minimum Percent Identity         37

Sequence Name    SWISSPROT Accession
pol_sivai            Q02836         
pol_sivgb            P22382         
pol_fivpe            P16088         
pol_caevc            P33459         
pol_biv27            P19561         

Family   pol_sivai pol_sivgb pol_fivpe pol_caevc pol_biv27


pol_sivai    1  sqIEETKVQLKEGKDGPKLKQWPLSREKIEALTEICKQMEEEGKLSRIGG
pol_sivgb    1  ..IPITKVKLKPGVDGPRIKQWPLSKEKIVGLQKICDRLEEEGKISRVDP
pol_fivpe    1  ..IPVVKVKMKDPNKGPQIKQWPLTNEKIEALTEIVERLEKEGKVKRADS
pol_caevc    1  ..IPITKVKLKEGCTGPHVPQWPLTEEKLKGLTEIIDKLVEEGKLGKAPP
pol_biv27    1  ekIEPLPVKVRGP..GPKVPQWPLTKEKYQALKEIVKDLLAEGKISEAAW

pol_sivai   51  ENPYNTPVFAIKKKDKTQWRMLVDFRELNKATQDFFEVQLGIPHPAGLQK
pol_sivgb   49  GNNYNTPIFAIKKKDKNEWRKLIDFRELNKLTQDFHELQLGIPHPAGIKK
pol_fivpe   49  NNPWNTPVFAIKKK.SGKWRMLIDFRELNKLTEKGAEVQLGLPHPAGLQI
pol_caevc   49  HWTCNTPIFCIKKK.SGKWRMLIDFRELNKQTEDLTEAQLGLPHPGGLQK
pol_biv27   49  DNPYNTPVFVIKKKGTGRWRMLMDFRELNKITVKGQEFSTGLPYPPGIKE

pol_sivai  101  KKQITVIDIGDAYYSIPLCKEFRKYTAFTIPSVNNTGPGIRYQFNCLPQG
pol_sivgb   99  CKRITVLDIGDAYFSIPLDPDYRPYTAFTVPSVNNQAPGKRYMYNVLPQG
pol_fivpe   98  KKQVTVLDIGDAYFTIPLDPDYAPYTAFTLPRKNNAGPGRRFVWCSLPQG
pol_caevc   98  KKHVTILDIGDAYFTIPLYEPYREYTCFTLLSPNNLGPCKRYYWKVLPQG
pol_biv27   99  CEHLTAIDIKDAYFTIPLHEDFRPFTAFSVVPVNREGPIERFQWNVLPQG

pol_sivai  151  WKGSPTIFQNTAANILEEIKRHTPGLEIVQYMDDLWLASdhdetrHNQQV
pol_sivgb  149  WKGSPCIFQGTVASLLEVFRKNHPTVQLYQYMDDLFVGSdytaeeHEKAI
pol_fivpe  148  WILSPLIYQSTLDNIIQPFIRQNPQLDIYQYMDDIYIGSnlskkeHKEKV
pol_caevc  148  WKLSPSVYQFTMQEILEDWIQQHPEIQFGIYMDDIYIGSdleikkHREIV
pol_biv27  149  WVCSPAIYQTTTQKIIENIKKSHPDVMLYQYMDDLLIGSnrd..dHKQIV

pol_sivai  201  DIVRKMLLEKGLETPDKKVQREppweWMGYKLHPNKWTINKIELppl.eg
pol_sivgb  199  VELRALLMTWNLETPEKKYQKEppfhWMGYELHPDKWKIEKVQLpel.ae
pol_fivpe  198  EELRKLLLWWGFETPEDKLQEEppytWMGYELHPLTWTIQQKQL.di.pe
pol_caevc  198  KDLANYIAQYGFTLPEEKRQKGypakWLGFELHPQTWKFQKHTLpeltkg
pol_biv27  197  QEIRDKLGSYGFKTPDEKVQEEr.vkWIGFELTPKKWRFQPRQL.ki.kn

pol_sivai  250  ewtVNKIQKVVGVLNWasQIYPGIKTKHTCAMLRGKKNLLEEIVWteeae
pol_sivgb  248  qptVNEIQKLVGKLNWaaQLYPGIKTKQLCKLIRGGLNITEKVTMteear
pol_fivpe  246  qptLNELQKLAGKINWasQAIPDLSIKALTNMMRGNQNLNSTRQWtkear
pol_caevc  248  titLNKLQKLVGELVWr.QSIIGKSIPNILKLMEGDRELQSERKI.eevh
pol_biv27  244  pltVNELQQLVGNCVWv.QPEVKIPLYPLTDLLRDKTNLQEKIQLtpea.

pol_sivai  300  a.eyknnqgivqetqegtYYDPLKe...LIATVqkqgegqwtyqftqe..
pol_sivgb  298  l.eyeqnkeilaeeqegsYYDPNKe...LYVRFqkttggdisfqwkqg..
pol_fivpe  296  l.evqkakkaieeqvqlgYYDPSKe...LYAKLslvgphqisyqvyqkdp
pol_caevc  296  vkeweacrkkl.eemegnYYNKDKd...VYGQLaw.gdkaieyivyqek.
pol_biv27  292  ikcveefnlklk...dpeWKDRIRegaeLVIKIqmvprg.ivfdllqd..

pol_sivai  344  gavlkvgryakqrethtndlrtLAHLVQKICKEALTIWGRLPRVQLPVDK
pol_sivgb  342  nkvlragkygkqktahsndlmkLAGATQKVGRESIVIWGFVPKMQIPTTR
pol_fivpe  342  ekilwygkmsrqkkkaentcdiALRACYKIREESIIRIGKEPRYEIPTSR
pol_caevc  340  gkplwvnvvh..niknlsipqqVIKAAQKLTQEVIIRTGKIPWILLPGKE
pol_biv27  336  gnpiwggvkgl.nydhsnkikkILRTMNELNRTVVIMTGREASFLLPGSS

pol_sivai  394  KTWDMWWq.dywQVSWIPewefvstpllvklw..yslvke.pikgedVYY
pol_sivgb  392  EIWEDWWh.eywQCTWIPevefistpmlerew..yslspe.plegveTYY
pol_fivpe  392  EAWESNLinspyLKAPPPeveyihaalnikra..lsmikdapipgaeTWY
pol_caevc  388  EDWRLELq..lgNITWMPk..fwscyrghtrwrkrniiee.vvegp.TYY
pol_biv27  385  EDWEAALqkeesLTQIFPv....kfyrhscrw..tsicgp.vrenltTYY

pol_sivai  440  VDGaaskvtklgkagYLSERG.ksrirelenTTNQQAELTAVKMALEDSG
pol_sivgb  438  VDGaanrdskmgkagYITDRG.fqrveeylnTTNQQTELHAVKLALEDSG
pol_fivpe  440  IDGg.rklgkaakaaYWTDTG.kwrvmdl.eGSNQKAEIQALLLALKAGS
pol_caevc  432  TDGg..kknkvgslgFIVSTGekfrkhe..eGTNQQLELRAIEEALKQGP
pol_biv27  428  TDGg..kkgk.taaaVYWCEG.rtkskvf.pGTNQQAELKAICMALLDGP

pol_sivai  489  ENVNIVTDSQYVMNILta.cpqe..snsPLVEQIIQALMKKRQVYLQWVP
pol_sivgb  487  SYVNIVTDSQYVVGILas.rpte..tdhPIVKEIIELMKGKEKIYLSWLP
pol_fivpe  487  EEMNIITDSQYVINIIl..qqpd..mmeGIWQEVLEELEKKTAIFIDWVP
pol_caevc  478  QTMNLVTDSRYAFEFLlrnwdeev.iknPIQARIMEIAHKKDRIGVHWVP
pol_biv27  473  PKMNIITDSRYAYEGMr..eepetwareGIWLEIAKILPFKQYVGVGWVP

pol_sivai  536  AHKGIg
pol_sivgb  534  AHKGIg
pol_fivpe  533  GHKGI.
pol_caevc  527  GHKGI.
pol_biv27  521  AHKGIg

Key

alpha helix         RED
beta strand         GREEN
core blocks         UNDERSCORE

You can also look at the alignment in RSF format, or MSF format with a Feature Table

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