Element:Cinful-1

From The Gypsy Database

Description

Cinful is a LTR retroelement characterized in the genome of Zea mays (San Miguel et al. 1998). This element belongs to a lineage of plant LTR retrotransposons (Tat), sibling of other lineage of putative plant endogenous retroviruses (Athila), providing evidence of a shared ancestral lineage originally described as class A by Wright and Voytas (1998). Cinful has several subtypes, subtype Cinful-1 is taken as representative. The genome structure of this clon is 8.6 Kb in size including LTRs of 0.6 Kb. The internal region displays a Primer Binding Site (PBS) complementary to a tRNALys, a single Open Reading Frame (ORF) pol (Cinful-1 has not gag), a non-coding region of approximately 3.4 Kb in lenght downstream to the INT domain that contains two tandem BSu36I repeats, and also, a Polypurine Tract (PPT) adjacent to the 3′LTR (San Miguel et al. 1998).

Structure

Cinful-1.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:AF049110
Clade:Tat
Cluster or genus:Athila/Tat
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Zea mays.gif
Zea mays
Image, Carlos Llorens,
Copyright, GyDB, Biotech Vana
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