Repbase Reports |
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| 2004, Volume 4, Issue 9 |
| September 30, 2004 |
| Copyright © 2001-2024 - Genetic Information Research Institute, California |
| ISSN# 1534-830X |
| Page 225 |
GYPSY1-I_CB |
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GYPSY1-I_CB is an internal portion of the GYPSY1_CB LTR retrotransposon - a consensus. |
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Submitted: 22-Oct-2004 |
Accepted: 22-OCT-2004 |
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Key Words: Gypsy; LTR Retrotransposon; Transposable Element; 5bp TSDs; Cb000423; GYPSY1-I_CB; GYPSY1-LTR_CB; Gypsy clade; LTR; RNase-H; gag; integrase; mag lineage; protease; reverse transcriptase |
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Source: Caenorhabditis briggsae |
Organism: Caenorhabditis briggsae |
Taxonomy: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis |
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Authors: Pavlicek,A. and Jurka,J. |
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Title: GYPSY1_CB - a young family of autonomous LTR retrotransposons. |
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Journal: Repbase Reports 4(9), 225-225 (2004) |
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Abstract: The consensus sequence was reconstructed from the Ensembl genome annotation. Copies are 99% identical to the consensus. Flanked by 5bp-long target duplications. GYPSY1-I_CB is related to GYPSY21-I_AG, GYPSY3-I_AG, and GYPSY18-I_AG. The 5' LTR (24bp) and the internal part encodes a 1390aa long gap-pol polyprotein. LTRs are listed as GYPSY1-LTR_CB. GYPSY1-I_CB_ORF: N-24nt - 4147 (1390 aa) MPPPGDTTTGDQATELADLTKQIGLLVNIFAKLAQASANAPLTTTPTSGHNLLVESISKRIPIFTYDPDD DQTFDTWYARYEDVLTKDGESLEEGEKSRVILSKLSSKEYSHFTNRILPKLPNELNFAELISKLRETFKS TSSIFRKRQDFLRTEYFGGAIEEYTGQVLRKFTSSEFKKMTDDQVCCMVWINGLRDNTYSDIRTKALQVM EAKPECTLLELEQNIKRLLDVRADSKSVCKLEPKSSEINAISTKETKRDKPQKAPPSPCYKCGGNHWAKE CQKQVTCHLCKKDGHIAKFCRTKKRETDQKGKNNRIKSVMVRSASTFEPSRIYRIVTINGTKIQMQMDTG ADVTLISTKDWNRLGRPQLQAPTIQVKSANHQPIKVRGSFQCNFVINGNVASGQAHVAETGTLLGTDWIS KDPTLWKTLNQQICAVSSDVGSACDYLDNTREQLKSNLEKEFNNVFQPGLGKCTKTKASILLKPGAQPVF RKARPVPFAALTTVSEELERLQQSGVISPVDHSEWAAPIVLVKKKNGSIRMCSDFSTGLNDSIQQHQHPL PTADDIFATLNGGKYFSQIDLAEAYLQIEIDEQAKQMLCINTHRGLFSYNRLPFGVKSAPGCFQQVMDAM ITGLDGAAAYLDDIIITGSTIEEHNSRLKSVFKRIDDYGFRVKLEKCTFLMPRITFLGFCIDKDGRRPDP EKVTAIQQMPEPKNDSQVRSFLGLIQFYGTFIKELFKFRPPLDALTKKDAEFKWTSECQSSFDNIKQMLQ SDLLLTHYDPKLPIIVAADACQYGIGAVISHRFPDGSEKAIYHISKALTAPQRNYSQIEKEAFGLITAVT KFHKFIHGRHFTLKTDHKPLLSIFGEKKGIPIYSANRLQRWATILLNYDFTIEYVNTHDFGQADALSRLI SEQIQQKECEDRVIAQVEMDVITNLVNTCEQLPVTAEMVKDYSKKDTLLAEVYEYTTSGSWPNNIDKSSQ IVFFHNRRDQLSIVSDCLMFNDRIVIPVSLRARVLKMLHRAHTGMVRMKQLARTLVYWPSIDKDIENIVR SCDQCAAVSKNPIKNTLCSWPISTKPWQRVHVDYAGPVEGTYYLVVVDSFSKWPEIVPTTSITSAATINI LRKMFAQFGDPETLVTDNGTQFTSAQFHDFCKDRGIQHTRSPPFHPQSNGQAERFVDTLKRALGKLKGEG NTDASLYLFLQSYRSSPCTASPNGSSPAENFIGRKIRTFLDQLLPTDQLPNSHDTEMEKQFNNQHGARCR NFNVGDKVYVKDYRSINTTTWIPGTIQRRIGRTMYRVTVENNNFWIRHTNQLRRRDTPTSFDVPLDTMDT MDAIDWTPLSTTLPDRSPPTPAPILPGSPTAPSPKPIRKSTRTVKPPPKFVMKPNKKSYH.
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Derived: [2] (Consensus) |
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Download Sequence - Format: IG, EMBL, FASTA |
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References:
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