Repbase Reports |
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| 2009, Volume 9, Issue 1 |
| January 31, 2009 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 54 |
CR1-YB2_Pass |
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CR1 Non-LTR Retrotransposon from Passeriformes. |
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Submitted: 08-Jan-2009 |
Accepted: 31-Jan-2009 |
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Key Words: CR1; Non-LTR Retrotransposon; Transposable Element; CR1-YB2_Pass; LINE |
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Source: Passeriformes |
Organism: Passeriformes |
Taxonomy: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae |
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| [1] |
Authors: Smit,A.F. |
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Title: CR1-YB2_Pass - CR1 Non-LTR Retrotransposon from Passeriformes. |
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Journal: Repbase Reports 9(1), 54-54 (2009) |
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Abstract: 15-18%. gag 1-805 (incomplete), pol 790-3782. Interesting story: 1) The pol is very close to that of chicken CR1-Y (79-80% at DNA level), the gag is close to that of chicken CR1-X (78% at DNA level) (chicken X & Y are only ~65% similar at the DNA level). The junction is confirmed by many copies. This indicates a recombination in the chicken or the finch lineage. Remember that the chicken gag tree did not correspond to the pol tree, so a recombination in the chicken lineage would make sense. 2) There is a distinct frameshift in the pol (pos 2959-2969 in this consensus, around AA 745 in related pols). The consensus is very clear and the frameshift seems to break the RT region (make sure), so the retrovirus must have had a frameshifting mechanism. The frameshift is not in the closely (75-80%) related CR1-Ya_Pass consensus.
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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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