Repbase Reports |
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| 2001, Volume 1, Issue 4 |
| April 30, 2001 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 4 |
ATCOPIA94_I |
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Internal region of the ATCOPIA94 copia-like LTR-retrotransposon. |
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Submitted: 30-Apr-2001 |
Accepted: 30-Apr-2001 |
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Key Words: LTR-retrotransposon; COPIA superfamily; internal region; copia-like polyprotein; reverse transcriptase; the ATCOPIA94 family; ATCOPIA94LTR; ATCOPIA94_I |
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Source: Arabidopsis thaliana |
Organism: Arabidopsis thaliana |
Taxonomy: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; euphyllophytes; Spermatophyta; Magnoliophyta; eudicotyledons; Rosidae; Capparales; Brassicaceae; Arabidopsis |
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Authors: Kapitonov,V.V. and Jurka,J. |
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Title: Internal portion of the ATCOPIA94 copia-like LTR-retrotransposon. |
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Journal: Repbase Reports 1:(4) p.4 (2001) |
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Abstract: ATCOPIA94_I is an internal region of the ATCOPIA94 copia-like endogenous retrovirus. ATCOPIA94 forms a separate family of copia-like retroviruses present in the A. thaliana genome since members of other families are less than 75% identical to ATCOPIA94_I. ATCOPIA94_I encodes remnants of the ATCOPIA94p copia-like polyprotein. The ORF which encodes ATCOPIA94p is damaged by one frame shift induced by a 5-bp deletion at position 3264 (masked by XXXX in the 1436-aa ATCOPIA94p sequence). Such a low damage indicates that ATCOPIA94 has been retrotransposed recently. ATCOPIA94 is inserted exactly between two hypothetical genes that are 86% identical to each other. ATCOPIA94p: IPSPLNAHYSLEDIVSYYYSKASDHPGHVISHPLLRGDNYEEWAINLETALASRKKFGFLDGRISKPEED SSDFDDWKSINALLVSWIKMTIEPNLRSNISHKPVARDLWEHIKKHFCVSNGPRVQQLRKELSNCRQDGL SIETYYGKLTKLWDNMDACRPRIVCTCGKCICDCLAVLETLREHDKVHDFLMGLDESAYGTVRSSLLIQE PLPSLEYVYLKVTQDEDSRSHKQVSDSRPDGMVFAAQHASRVRPGERSSSTTVCTNCGRTGHMAESCFQI LGFPEWWGDRPRNQNGRGCGTKSNGSGRGGGVVARDNVAQGASSSEVVHANVAITDADRAAVLNLTDEQW ISVKRAINATKGNSDEQLSGKSSSTSWILDTGATNHLTCRRDILENVRKSTSTPIILADNRIVMGDMVGS VTLNKHLKLHNVFYIEDLGFDLISVTQLMEENDCVMQLSVPFCVLQDRTTRTLIGVGKPSGGLVYFRSTE VAVAVKGVPKQSLELWHQRLGHPSLKVVESLPDFVFSSHKDFSNKACDVCIRAKQTSSSFPISNNKTTEI FEMIHCDIWGPYCEPSSSGARYFLTIVDDYSRGTWLYLMKNKSDTQTKLRDFIALVDRQFGKKVRVLRSD NGGEFLSLTSYFLASGIVHETSCVGTPQQNGRVERKHRHLLNVARAIMFQGSLPIQFWGECALNAAYLIN RTPSMVLNGKTPYKVLFGKRPSYDHLRTIGCLCYIHNQDHHGDKFASRSRKCVFVGYPYAKKGWRVYDLE KEIFCVSRDVVFDEGIFPFHNDLNPLPLTLDTTSSLTPFYSDDDDDDNGPTTCSVSVPPVPVIPLRVAPI SLADSGSKVDLPNDDLVLPDSASTTPLPTDPKPTRERRQPAYLADYETTFLCGSSSTPYPISDVLTDARF SSAHKAFLTAITLAHEPATYAEAFADPKWRDATKEEIDALVLNHTWDIEDLPLGKVAIGSKWVFKVKHXX XXTVERYKTRLVALGNRQKEGIDFDETFAPVAKMTSVRIFLSIVAARNWEVHQMDVHNAFLHGDLEEEVY MKLPPGYFAQHKGKVCRLRKSLYGLKQAPRCWFAKFATALKNYGFQQSYSDYSLFSFNRDGVSLYVLVYV DDLIVTGNSTTAISEFKQYLDSCFHMKDLGLLKYFLGIEVARSPDGIYLCQRKYVLDILQDTFLLGAQPS GFPIEQNHTLASATGSFLTDLASYRRLVGRLVYLNVTRQDLAYSVRVLTQFMQKPREEHWTAALRVVRYL KGTPGQGVLLRANSDLHIYGWCDSDFSGCPRSRRSLTGWFVQLGQSPVLWRTKKQKVVSMSSAEAEYRAM SLTARELVWLQALLEDLAVFLSRPMTLYCDSTAAIHIAANPVFYERTKHIERDCHFVREKVQNGTIATVH VSTTTQLADIFTKALGSREFDVFRDKLGIEDLHAPT
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Derived: Positions 32279 36916 Accession No AC022354 GenBank (rel. 124.0) |
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Download Sequence - Format: IG, EMBL, FASTA |
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References:
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