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About Populus trichocarpa

Populus trichocarpa (poplar) is a deciduous broadleaf tree that is native to Western North America. It is an economically important source of timber. Its rapid growth and compact genome size (~500 Mbp, n=18) has lead to its use as a model organism for tree species.

Taxonomy ID 3694

Data source JGI

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View karyotypeExample region

Genome assembly: JGI2.0

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Download DNA sequence (FASTA)

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Example geneExample transcript

Gene annotation

What can I find? Protein-coding and non-coding genes, splice variants, cDNA and protein sequences, non-coding RNAs.

More about this genebuild

Download genes, cDNAs, ncRNA, proteins - FASTA - GFF3

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Example gene tree

Comparative genomics

What can I find? Homologues, gene trees, and whole genome alignments across multiple species.

More about comparative analyses

Phylogenetic overview of gene families

Download alignments (EMF)

Genomic alignments [3] [Show»«Hide
Populus trichocarpa : Arabidopsis thalianaLASTZ_NET | stats
Populus trichocarpa : Oryza sativa JaponicaLASTZ_NET | stats
Populus trichocarpa : Vitis viniferaLASTZ_NET | stats
]

Syntenies [3] [Show»«Hide
Populus trichocarpa : Arabidopsis lyrata | stats
Populus trichocarpa : Arabidopsis thaliana | stats
Populus trichocarpa : Vitis vinifera | stats
]

Variation

This species currently has no variation database. However you can process your own variants using the Variant Effect Predictor:

Variant Effect Predictor

Regulation

What can I find? Microarray annotations.

More about regulation in Populus trichocarpa

More about the Ensembl Plants microarray annotation strategy

Links

About this species