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P-MITE specifications

Information


Unique identifier OMICS_03236
Name P-MITE
Alternative name Plant MITE databases
Restrictions to use None
Maintained Yes

Publication for Plant MITE databases

P-MITE citations

 (5)
library_books

Genome Wide Comparative Analysis of Miniature Inverted Repeat Transposable Elements in 19 Arabidopsis thaliana Ecotype Accessions

2017
Sci Rep
PMCID: 5454002
PMID: 28572566
DOI: 10.1038/s41598-017-02855-1

[…] mally does not include TSDs. Later, CD-HIT was applied to cluster all detected canonical MITE sequences into 212 canonical MITEs groups. The superfamily and family information were inherited from the P-MITE database accordingly. To note, the representatives of 6 MITE clusters (out of 212) were annotated with a family name under a plant species other than Arabidopsis, but closely related species, s […]

library_books

Comparative structural analysis of Bru1 region homeologs in Saccharum spontaneum and S. officinarum

2016
BMC Genomics
PMCID: 4902974
PMID: 27287040
DOI: 10.1186/s12864-016-2817-9

[…] antbiology.msu.edu/pub/data/TIGR_Plant_Repeats/) [], the MIPS Repeat Element Database (mips-REdat) (ftp://ftpmips.helmholtz-muenchen.de/plants/REdat/) [], Repbase (http://www.girinst.org/) [] and the P-MITE database (without TSD for monocots from http://pmite.hzau.edu.cn/download/) []. Moreover, we also parsed 3470 GenBank sugarcane sequence accessions for features annotated as ‘mobile_element’, ‘ […]

library_books

A comparative gene analysis with rice identified orthologous group II HKT genes and their association with Na+ concentration in bread wheat

2016
BMC Plant Biol
PMCID: 4719669
PMID: 26786911
DOI: 10.1186/s12870-016-0714-7

[…] sequences were identified through self-by-self search in “Align sequences nucleotide BLAST” in the NCBI blastn suite. Transverse repeats were further analysed by blastn search function in TREP [] and P-Mite (Plant MITE) [] databases. Cis-acting regulatory elements associated with salt stress response in the promoter regions were identified by blastn search in PlantCARE [] and PLACE [] databases. […]

library_books

Genome Wide Comparative Analysis of 20 Miniature Inverted Repeat Transposable Element Families in Brassica rapa and B. oleracea

2014
PLoS One
PMCID: 3991616
PMID: 24747717
DOI: 10.1371/journal.pone.0094499

[…] tures. The expected hairpin structures were estimated using one representative intact member of the each MITE family using mfold . The identified MITEs were searched against Repbase, RepeatMasker and P-MITE database , , to find the homologous MITEs from plant species. MITE families were searched for MITE-derived miRNA at miRbase version 19 using an E-value of

library_books

Losing identity: structural diversity of transposable elements belonging to different classes in the genome of Anopheles gambiae

2012
BMC Genomics
PMCID: 3442997
PMID: 22726298
DOI: 10.1186/1471-2164-13-272

[…] lack one TIR, which probably makes them dead elements. They have been compared to the MarinerN elements to which they belong ( ), as they do not share identical TIRs with any full-length Mariner. The P MITE elements [] have also been compared to the MITE sequences already described as such ( ). The Tc1 families present heterogeneous 5′ TIRs (Figure G:a) but conserved 3′ TIRs (Figure G:c) at the po […]

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P-MITE institution(s)
Department of Vegetable Crops, Key Laboratory of Horticulture Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China

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