Phylogeny:INT LTR retroelements


GalEa1Cico1Olco1Zeco1Zeco2pCalTdh2Ty4Tkm1Tse1Ty2Ty1BCoDi5.6CoDi5.1CoDi5.2CoDi5.3CoDi5.4CoDi5.5CoDi7.1CoDi2.4CoDi3.1CoDi4.4CoDi4.1CoDi4.3CoDi4.5Endovir1-1SIRE1-4ToRTL1TSI-9Opie-2Vitico1-2MelmothHopscotchRetrofitKoalaTork4Tnt-1V12Tto1BatataRTvr2Sto-4FourfTricopia1731XanthiaspCretro3pCretro6HumnumMtangaYokozunaCopiaKocoPocoOryco1-1Vitico1-1AracoOryco1-2CoDi6.6CoDi6.1CoDi6.7CoDi6.4CoDi6.5CoDi6.2CoDi6.3Hydra1-1Hydra1-2PyRE1G1OsserSaci-6SinbadKobelNinjaBelRooMaxTribelNabelMooseSpirobelHydra3-1Cer10-1TasCer7MabelPurbelSuzuGabelZebelTamyCubelSURLGulliverCer4Cer6Cer5MagSPMCFG1Hydra2-1DRMCigr-1SnRVRTVL-IaHERV-EREVBAEVMMuLVRCHO-K1FeLVPERV-MSLMdEVGALVKoRVWdSVXEN1ASSBSVZFERV-2ZFERVJSRVMMTVK-HERVHERV-K10SMRV-HSERVMPMVSRV-1PyERVLPDVRSVBLVHTLV-1HTLV-2STcLV2PP1664CAEVVMVSA-OMVVEIAVBIVFIVSIVMNDSIVAGMHIV-1SIVMACHIV-2DrFV-1MuERV-LFFVBFVEFVSFV-1HFVTor4aTedZamTv1Idefix17.6Tom297NomadBurdockSpringerGypsyGypsyvirHMS-BeagleYoyoMicropiaBlastopiaMdg3Tor2Tor1rGmr1Gmr1OsvaldoWootCirceUlyssesCinful-1RetroSor1B1147A04.5RIRE2Grande1-4OgreTft2Tat4-1Bagy-2Athila4-1DiasporaCalypsoCyclops-2KabukiCsRN1BoudiccaCer1Cer3Cer2Mdg1412G-RhodoTse3PeabodyDelTmaLegolasRetrosat-2Bagy-1GaladrielMonkeyTntom1GloinReinaGimliIfg7Beetle1CerebaCRMTy3-1SkipperTF2TF1Cft-1SkippyCgretPyretAmn-ichiAmn-sanSushi-ichiAmn-niMaggyDane-1marY1MGLR3GrasshopperRealPyggyINT ltr retroelements.png
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Method of phylogenenetic reconstruction

Phylogenetic reconstruction inferred based on the integrase protein (INT) encoded by the pol internal region common to Ty3/Gypsy, Retroviridae, Bel/Pao, Caulimoviridae and Ty1/Copia LTR retroelement families using MEGA 4.1 (Kumar et al. 2008) and the Neighbor joining (NJ) method of phylogenetic reconstruction (Saitou and Nei 1987) with 100 bootstrap replicates under the conditions, uniform rates among sites and pairwise deletion of gaps.

 




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Cite this project:

Llorens, C., Futami, R., Covelli, L., Dominguez-Escriba, L., Viu, J.M., Tamarit, D., Aguilar-Rodriguez, J. Vicente-Ripolles, M., Fuster, G., Bernet, G.P., Maumus, F., Munoz-Pomer, A., Sempere, J.M., LaTorre, A., Moya, A. (2011) The Gypsy Database (GyDB) of Mobile Genetic Elements: Release 2.0 Nucleic Acids Research (NARESE) 39 (suppl 1): D70-D74 doi: 10.1093/nar/gkq1061

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