Element:Diaspora

From The Gypsy Database

Description

Diaspora is a multicopy envelope-less LTR retroelement that comprises at least 0.5% of the Glycine max genome (Laten 1998; Yano et al. 2005). Diaspora belongs to Athila clade, a lineage of possible retroviruses in plants (Wright and Voytas 2002), which is sibling of Tat clade, a lineage of plant LTR retrotransposons. Both lineages provide evidence of a shared ancestral lineage originally described as Class A by Wright and Voytas (1998). The genomic structure of Diaspora is not represented in current databases but a full-length consensus sequence of Diaspora was generated from short overlapping sequences (Yano et al. 2005).We have considered partially this information to classify the full-lenght Diaspora consensus, which is 11.7 Kb in size including LTRs of 2.5 Kb. The internal region of this element displays a Primer Binding Site (PBS) complementary to a tRNAAsp, a single ORF that encodes a gag-pol polyprotein, and, as other LTR retroelements, a Polypurine Tract (PPT) adjacent to the 3´LTR.

Structure

Diaspora.png


Figure not to scale. If present, long terminal repeats (LTRs) have been highlighted in blue. Amino acid motifs noted with lines indicate the conserved residues in each protein domain, abbreviations below mean:

MA=matrix PR=protease DU or DUT=dUTPase TM=transmembrane TAV or IBMP=transactivator/viroplasmin or inclusion body matrix protein
CA=capsid RT=reverse transcriptase INT=Integrase CHR=chromodomain
NC=nucleocapsid RH=RNaseH SU=surface MOV=movement protein
PPT=polypurine tract PBS=primer binding site ATF=aphid transmission factor VAP=virion associated protein

Related literature

Genbank accession:AF095730
Clade:Athila
Cluster or genus:Athila/Tat
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Glycine max.gif
Glycine max
Image, Carlos Llorens,
Copyright, GyDB, Biotech Vana
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