Repbase Reports |
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| 2004, Volume 4, Issue 12 |
| December 31, 2004 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 317 |
Gypsy12-I_DR |
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An internal portions of the Gypsy12_DR LTR retrotransposon - a fossilized copy. |
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Submitted: 00-Dec-2004 |
Accepted: 31-Dec-2004 |
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Key Words: LTR retrotransposon; endogenous retrovirus; Gypsy superfamily; gag; reverse transcriptase; integrase; Gypsy12_DR; Gypsy12-LTR_DR; Gypsy12-I_DR |
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Source: Danio rerio |
Organism: Danio rerio |
Taxonomy: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Danio |
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Authors: Kapitonov,V.V. and Jurka,J. |
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Title: Gypsy12_DR, an LTR retrotransposon from zebrafish |
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Journal: Repbase Reports 4:(12) p.317 (2004) |
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Abstract: Gypsy12-I_DR is an internal portion of the Gypsy12_DR LTR retrotransposon that belongs to the Gypsy superfamily. Its long terminal repeat is deposited in Repbase as Gypsy12-LTR_DR. Gypsy12_DR is characterized by 4-bp target site duplications. The internal portion encodes two proteins: the 469-aa gag Gypsy12_DR1p (pos. 153-1559) and 1543-aa polyprotein (pos. 1475-6105, conceptual translation) composed of the protease, reverse transcriptase, and integrase domains. PBS is identical to that in Gypsy9_DR. The internal portion is flanked by 99% LTRs. Gypsy12-I_DR1p: MDISQTAQWSTEENINSSRAIVLSNVPLNTSDETIEKVLNTVKVFGRTQIHGRRGDVTGKHLFV LVETRADLDPSTIPPEIGIESEAGPWPVHFVGRLQVQNPAPENDTFQSKLLTLMQQEGKSMDEV KAILMGEHSPKSDINVDLVDAIGKLVDRCNQASNDGPSYRKLRLFSGLKPVPPGEEEYEIWMEQ AAQMISEWQCTEASKKQRIVESLRGPAADIVRFLKVSQPSATATEYLAALETAYGTTECGPDLM AKFRHTYQDNGEKLSAFLYRLDKLLHRALLKGGIDVAGINKARMEQLIKGALTNDMVALRIRMT HTLQNPPSFTQLMKEIREEEHWVAARENVKASVATVISPQSDGPSELQSLKKEVKELSSQMSHL LNVATATCASECAPQKTSSKNSESVKRDKSQPTKLTQQPVPGIFCYKCGEDGHKKWECKGQEDL RKVNQKLIKMHRLQGNWAGVQ Gypsy12-I_DR2p: MQGTRGPQESKSKADQNASFAGKLGRSSVKERHGAPGTTRSNCDSFLLDASKPRLPEGLIGPVS EVPVQIEGVYAKALLDSGSQVTLLYRSFYDTYLKHLELQPVENLEIWGLSSHKYPYDGYLPLRL EFTESVAGVHQIIDTLAIVCPDPVKREGIAILLGTNTSLVKKLLESCRKQAGEEFLNVLTIHPV IREAFETIQLTDFSQDDSDTHGTVWFIKHNPVVLKPNQVRQLPGLLKFPGQSTESLVLVDRVAD SDTSSEHLDVRPELHAASVVSSRQVTVTVRNMSNREIWVKRGTPLAHVLPVSLVPQLTAKQPPV QNPLSPASFDFGDSPMPEEAKQSLREKMMQRKDVFSLHEWDVGCSKSTTHEIRLNDSRPFRERS RRLAPADLEDVRLHLQELQSSGIISESRSPYASPIVVVRKKSGKVRMCVDYRTLNQRTTPDQYT VPRIEDALHSLSGSKWFSVLDLRSGYYQIPMSDADKEKTAFICPLGFYQFERMPQGICGAPATF QRVMERTVGDMNFLEVLVYLDDLIVFGRTIDEHEERLLKVLDRLSDEGLKISLDKCQFGRTSVN YVGHIVSQDGISTDPSKIEAVVSWPKPQTVTELRSFLGFCGYYRRFVKDFSKFCRPLNELLKGY PSTRKNRDSLVCNTKPCYKSSEPFGSRWSAQCDTAFETLKKCLTQAPVLAFADVQKPYVLHVDA SMDGLGGVLYQEHESGLRPVAFISRSLSPSERNYPAHKLEFLALKWAVVDRLHDYLYGVPFEVR TDNNPLTYITKSAKLDAAGHRWLSALTTYNFSLKYRPGRRNVDADALSRRPHTYRSEDDEWQEI PAVGVRTFCQAVSLEKRAENGFYTCVVKQAGAHMSAVPKAYSHVMEVAADHLPLFSSSDLQTAQ RNDSLLGEVWKAVCDKKPASSIRSSHPSMKILKREWEKLVVNNGMLYRIVRQSNHKVKQQLVLP KQFHSSVLKSLHDDIGHLGFEKSYGLVRDRFYWPHMKPDVESYCKTCERCIKRKTLPQRAAPLS HMQSSGPLDLVCIDFLSIEADSRNVCNVLVVTDHYTRYAQAFPTRDQKASTVAKTLWEKYFIHY GLPTRIHSDQGRDFESQLVSEMLTMLGIKKSRTSPYHPQGDPHLRDLTELXNMLGTLQPSQKSK WSQHIARLVHAYNCTVNEATGFSPYFLMFGREARLPVDVCFGVSADSSSSGSYSKYVSKMKQEL QAAYQLAQVSSEKMNQSNKARYDQKVRYHSLSVGDRVLIRNLGLKGKQKLADRWSENPYVVESQ LSGIPVYRLKPVDGNGPIKVMHRNHLLPLGQEVRLKPKVDLGPTSLPKNLRHRSVKDKRKTAQS ENPPIAVDVFSREHDSSDSDSEYGCYVEDMAPISSESAQEIQGETPEQAVECLDYSNAHRVSEI PVIPCQSETSEFQLTDADRNTDVVDDVMTEVSESTSQTTVQTTDNETQPEIVPFEVRRSNRERK PSTRFTYDKLGVPYLHSVSSKCCGINALTTDVLNVYGSLNKSHAWWCNPNALCKTCKNRPVLVP CKQMVAM
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Derived: Positions 22688544 22682376 Accession No chr8 Zebrafish.v4 |
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Download Sequence - Format: IG, EMBL, FASTA |
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References: |
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