Repbase Reports |
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| 2004, Volume 4, Issue 7 |
| July 31, 2004 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 198 |
RandI-3 |
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RandI-3 is a family of non-LTR retrotransposons - a consensus sequence. |
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Submitted: 00-Jul-2004 |
Accepted: 31-Jul-2004 |
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Key Words: non-LTR retrotransposon; RandI superfamily; AP endonuclease; reverse transcriptase; RNaseH; RandI-3 |
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Source: Chlamydomonas reinhardtii |
Organism: Chlamydomonas reinhardtii |
Taxonomy: Eukaryota; Viridiplantae; Chlorophyta; Chlorophyceae; Volvocales; Chlamydomonadaceae; Chlamydomonas |
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| [1] |
Authors: Kapitonov,V.V. and Jurka,J. |
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Title: RandI-3, a family of RandI non-LTR retrotransposons from the Chlamydomonas reinhardtii genome |
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Journal: Repbase Reports 4:(7) p.198 (2004) |
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Abstract: RandI-3 is a family of RandI non-LTR retrotransposons. Approximately 20 copies of RandI-3 are present in the genome. They are ~1% divergent from the consensus sequence and are likely mobile. The RandI-3 elements are usually flanked by 10-15-bp target site duplications. The consensus sequence encodes the 3671 RandI-3p protein (nucleotide pos. 98-11110) composed of the AP endonuclease (aa pos. 1030-1300), reverse transcriptase (aa pos. 1650-2000), and RNase H1 (aa pos. 3170-3340) domains. RandI-3p: MATMLVLITYVMLILGVLVRTSHWPEEVRPFHTPEVLQALAGLLARSWTPSLTSGGPEEVATTA MHRMPPQKYAPFCIPATLVATNPAICSAGSRLSSGSYGSQQMNVRSAAPTPTQQSQQPLPGTRK QRLCNETNTTLPVSLRPPAPDVQNLDLSRDRRRPATTSPRAANSCTSRTLKSPTLQHYVSTSLQ PPASDGQNSDMSRGPATTSPMAANPFSPKTLKSPASQHYSTAERPPDDTPHDPGPGSSARGPRA PAALLCHTRTASPALQLWCQTMGPYPIVQLQMHNDTDPLIATVSYISAHITSALCWTAVGTFHG SCALLRHTIASLRTLLTHTAAYMTTCTGTLIAHSWRTAASITLWPPALTLVAASAARLAWSART MLSHPSAGNLTTLTFTLLATLTLSQPLLLLISTHQHISTTLTLLTTTAAIYATLRKTHGAPLIL LGLPVYATCRAVAVKPAYTMRTLLTILLLLTNIQATAEAPELTPAAAPLAMQLLTRIPGSPTLN TGVVGLTYLLSQTHIHPQPACLALTTNLATYRYLMDVTTPWSHTLGSPIPPPIQLRGGNPIEHT PATNRVAAATESGRKPERIQWPRQIQHTFFREQQQLNFCTVHAINNMLGKPWLLATDVLAFCQV SHTAMADTPALYTLWGHHFRYHGLFHEAAINHYLRHRPPAVDHTGARLLLRTVAKTLTPGHTQD HIISLLPDCSKGLGLMVHDGRHAYAIRKENDTWYLVDSLAHIGRKPMTQELWAATKGDLFCLHP LHPDMPPDPLTYPTIPGLPEPPPPPTPTTQPRPRKGTVQLTLNTTMTRTLNRAPLNPNPENSTT SNRAQTRPQTQTTLANLVARSQTHAEPQGTQLTPPEDPQEPPPRTHAPTHEHGRPPTPPSAARP TRRLRRNDQISPHSPTRHRTQQDATTENQQPQAPPPANDPVPTPQPRPTWAQVLTNNASAVGTA TLHVLTRLSPAPRHRPDTPTSAARPTQRPRQELPGSPTTHTATAPPDPPPTNPTATPPVTEQAA EPAASWLHVVTHNVRGLSTNLLSTVCHLREWDADIVILTETKLGPRTRWLKDTLRHEKLSYRTF TSTKPGTAQYKRRSASVLMAISKRYHSGSNIHTATIPPHLLGHLAHCTIRTPHSIPLHILGVYC PEDMPTRRRIYTYCTSTLKAAAAAGEHVLIGGDFNAVLTAADRTGPLDDADRHHARFVSSHRLH RITEPNGTTSMTYYQTRDGHPQAISRIDDILICQHTSNALVAAATEPGGNTPTLKVQPSGGLFD HSSVHIHLPTFPMRLWTAPTGNRTGNTTQPPTGPWPQVVLPISTSTLEAVRTKIEHTLASPIAN LAAALQPASTAIRDHLDRYTTGATNATELDTQLKGGPTVQAPNLDALAGQLHDILKDGLNILVD MCPKKPPRTGAFAPRRISKKIRRAHEELRQLRAAIADNDTLHTPGNAATGAPTTPQPSPCPPTE GEPTTPTPTRGPRPPPPNQTVSDLINKIKHVGSALRQTLKKLTQSEVQKSRARFQHKLATRAKQ AHKDIFSNQEQARGIPAVLHPHTKAHCTDKASILEAIHTYFQDQGATITGPRTGNYKPEDRHPN TRYPFDPSNRTAPDTFKLHSTCSPTSHALLPSISDSANFDTCIDHLSRNKSPGPDGIPNELLRA LPTPLRTALHNLLILMWVRAHTPASWTASETVLLPKPGDPLLLKNYRPIAQANTTYKLWTSLIT VAISDISHDLDLFSETQEGFLRYRNTERQTLNLVHALEDAGLTNQDIYVMYADFSSAFNTISHD RLLEIMWDLGMPHDLLRVVQNLYANARTYIRTEHGLTSPVHIERGTVQGDTLSPVLFLMFIEPL IWWLHVGGRGYSYGCLPNHLNNRFHCSSAAYTDDLAVLTNTLSDLRIQCDKIHRYSAWAGLQVN HAKCRVTGILHRRAQQDKGLNGPTCNRTLKSMLENKIHIGDKPVPYLPATEPFKYLGVQITMNL HWGPQFAYLCDAIKEKSANLQTSLASPEQCLRIIKSCIQSMAAYSFAVMPYAENDIRTLDAMIA RLAKKCYRLTPGFPTRATLAPADMSGLGVGSLLPLYAQKATRALTLALNDPGRLGMVTHALLEL QSRIAGTAAIHKLRRESHFYTTLKQLSIMREYDITLWDHGAPYAGPINTILQAVNRNPRPIPHH LVHTLAQAGLDLRALISTERTKEGLTCLIPSDSLFLRLPRNQCKRQHRIALNRLSLCLSAEGAP TRAAPYDQPETYNCHLPLPQQYRALPATPAFAALLPQSATATGAPQTTLMAHRQHMTTLHPEPN STQPHAPTAFNATAPPRAAQPRGVPTRQAALTRHLRPVETACTLATIPAPPTQAGTPDPNQTAT PIALAQGTAPTLPPADTPATQPQTQTNTNKRKRINLQVKKVKGPSASKRLERRIEAEPRHDPLG TRGQRDHTGRHGFVLDHGEPVAGDTVPADFVMWAPRFYSMLQKDMSGKTHIPRLGIPPGKQKFP TTLPRPRYTRQIPTHLTTPYFLNDGEPHNPVQTYLRDHNATKAPLCAYDTPARWAQAGDFIIEP EPPRWPTITGADPANPDDPREADPDPNGMSRKAYMAERALLRQRTQHQDGRPRLITRWMGIRAQ VMTGGLQWPKNTSDATRAASQLIFSLYYDLESVSHVHAGPIHKLIAAPARNERPQTALYYEVAW KPTTIVRGAAAAYTIMKYTGTPHAHLAYGQSCSRYFVHMHWNVTSEPASKCPTLQGWRAAHAAH LQRLSKPPSEPTPPPPRDSHLSPAQRQGRWTPPDVEGAARRRTTRQNTQINTKPCNPYHDIYPT GAYTIQITDTYTDAQTLAHIHGPDGRHISSITMGTLHTLHTRYKHALASNPTETASLRSPGGFP EDVAKLLIRTRVDEKGKPCKTAPALERSLPTCLKTTLLDALAAAHPDETNPALMERFASPLNCS NRVCQYWSAQPADALFGATTDVLSAPFTGLSIAHPGPNPAAYTKALAWAVATTELLEGQMDPAI TLMVIPHNHKSPHTRLFSSPHVTHIAYLPPDTPATNLDEGLGDLSPAITLRHGLDLLLVANTTG VQAFTARNNLANLQAALTDIGAQPPRPTRTTAAVARWPRRITLPRDRHQPTSRPYSHRAQTRAR QATHRTPPTPPAPPTCTVSPPIQAELNALRDCFPAISRPLYDAATVIWTDGSCIKIAVGDDGAE MNQLGACAWTATTGEPLYVEPGGLNSTNTIQRAELSAILAALRHYRPRAQLLGLTKLVIASDSL VSLYLIRRAISDPMKLTLSKHKNLLSDIVKELNECADELLPVVFLKVRSHTGLAGNDEADKGAA LVAQRDAGAMSQAVHLPPDEPWANIWWPKRNSDNFYISDLNRGVLSSLPPRAQYGFTDSTTVLD NWAAAADGACPQSSNLTLASPARHPWLVKQILYARYGYLFNATLKRRYGLGGNGLCPLCEAPDS GGHILGGCSQRQMKGAYINRHNIAVQRVAKCISKGSYGGGYMVMDAGPLADLPEYASGQRPPAW LFRNGTPPEVIARLRPDILFIPALDTTTTQREDYRPPRNRSRTPIYILEIGYSSDSQHLHKREE KSQQHQELKQLLEEAGWTVHYSPAECIALGVTGTIPANLVPLLTTLGVSPKAAKTCGHKLHHHA VNSAGGIIKARRIMEYGHTRTPG
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Derived: [1] (consensus) |
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Download Sequence - Format: IG, EMBL, FASTA |
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References: |
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