Repbase Reports |
|---|
| 2002, Volume 2, Issue 10 |
| October 31, 2002 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 4 |
DOC5_DM |
|||
|---|---|---|---|
DOC5_DM is a non-LTR retrotransposon - a partial consensus. |
|||
|
Submitted: 31-Oct-2002 |
Accepted: 31-Oct-2002 |
||
|
Key Words: Non-LTR retrotransposon; ORF1; ORF2; JOCKEY clade; reverse transcriptase; Porto-1; DOC5_DM |
|||
|
Source: consensus |
Organism: Drosophila melanogaster |
Taxonomy: Eukaryota; Metazoa; Arthropoda; Tracheata; Hexapoda; Insecta; Pterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila |
|
| [2] |
Authors: Kapitonov,V.V. and Jurka,J. |
||
|
Title: DOC5_DM, a family of Jockey-like non-LTR retrotransposons from D. melanogaster. |
|||
|
Journal: Repbase Reports 2:(10) p. 4 (2002) |
|||
Abstract: DOC5_DM belongs to the JOCKEY clade of non-LTR retrotransposons. DOC5_DM is a separate family. Members of this family are ~94% identical to the DOC5_DM consensus sequence. Therefore, this family was active a few million years ago. A portion od DOC5_DM (positions 4578-4089) was described previously as the Porto-1 repeat [1]. DOC5_DM is less than 70% identical to reported retrotransposons. The sequence is incomplete, There are ~30 copies of DOC5_DM present in the sequenced portion of the D. melanogaster genome. The amount of sequence data is not enough for a complete reconstruction of the ORF2 protein encoded by DOC5_DM. ORF2 in the consensus sequence is corrupted by mutations accumulated in DOC5_DM elements during their immobile vacation in the genome. ORF1p (positions 211-1947): MSASDAQNQKRELQAKQNKNNSYLSFTHISNYTNNYQSLHPQSDGRARSCSPALERPNNYSQHRSAECAP NSSARTPTTTSAIPINTHSTLPLTAVTLSALPLWTLPLSATSETNTTTVATIATTTTVFYVSMPICSSSA NIKTPSSIPASTKINKTQSSLPNQQNLKLYRDNQSPNSSKDLLNNNKKQRNKAQTATQKTLKKYWLAEPH SSNRFELLAQDDEDENQTDNGTNATINTQMQIEHKSAKPPPIYVQNVENIYALTTALNSLEETRYELKAL SSNEIKIQPLETTHYHNILRLLKDKSTKYYTFRPKDQRGFKVILRNVHHATDKDDIINELAQQGHEVINL HNIQRYDSKQPLPLFSIELKMKDNNKDIYKIEHLLHCKVIFEPPRPKRTLPQCTNCQKYGHTKNYCTKDP TCVKCAGKHSSSSCTINTRSDRTSIKCALCSENHTANYKGCMVYKALQIQKYPTLRKKEIPVTETTHQTT QHSTTNNVVSLKTPALSYAEVLNKNQVTSHQTNSTPQPTIVPDIQPASTQLSQTAQNDFDELKQMMKQLI AQMTNMMNIFTLLLFKLDK C-end of ORF2p (positions 2937-4427): NRLQYYLSKLETTLSTNYSLWKATKKFTNSTIHKPPIKRNNNTWARSNKEKADTIYNDNAELPRQITNLN CAIKTITKAEIKSHIKQIKNKKAPGYDLIGGKILKELPDAIITYIRNLFNGILRLQYFPITWKVGQIKAI PKPNKNANTVSSYRPISLLPVLSKVFEKVLFEKLLFNRIEPILKQKNIIPPHQFGFRKQHSTVQQVHRVI NKITDDFDKKKFCYAVYLDIAKAFDKVWHKGLLHKLRNILPYNLYTILQSYITDRYFYIKYDNECSDIMP VSAGVPQGSVLGPILYLIYTSDIPAPTTPGSMIATFADDTVLMSSSACEKTAASTLQQIMTQTVSWFERW GIEINKDKTQQVIYTKRQPKNFAIKINDNQILLHPYAKYLGLTIDSKLTWKQHILNKRNEIKNKFRQLNW LIGKHSKLELHNKIAIYKAIIKPIWTYGIELWGTASKSHLQLIQRTQSKMLRIITKAEWYIRNEDIHNDL NIETVNETIKKKQQKTHKSTT
|
|||
|
Derived: [2] (Consensus) |
|||
|
Download Sequence - Format: IG, EMBL, FASTA |
|||
References:
|
|||