Genes in

Homologues

Download results as CSV

1. Build Phylogenetic Tree based on gene list

2. Tree settings

Separate genes into different homologous groups

Real branch length

Show genes structure

3.

Build tree...

4. Output:

View homologous group

Multiple Sequence Alignment (MSA):

Phylogenetic tree:

Download:

Protein sequences

Show genes ID

GenePair

1. Select first assembly

2. Enter a gene

3. Define distance

4. Select second assembly

5. Select second gene

6. Plot options (optional)

One-to-many

Distinguish score

MacroCollinearity

GOEnrichment

Table
Plot

Download results as CSV

Select group

GeneDescription

JBrowse

National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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Genes in

Homologues

1. Select assembly

2. Enter gene list example

Or upload file

3. Select task

Min match score

4. Search to following assemblies

1. Build Phylogenetic Tree based on gene list

2. Tree settings

3. GO

4. Output:

View homologous group

Multiple Sequence Alignment (MSA): View

Visualization of Multiple Sequence Alignment

Phylogenetic tree

Multiple Sequence Alignment

Phylogenetic tree:

Download:

GenePair

1. Select first assembly

2. Enter a gene example

3. Define distance

4. Select second assembly

5. Select second gene

6. Plot options (optional)

MacroCollinearity

1. Select first assembly example

2 Select second assembly

3. Mark region? (optional)

3.1 Enter a gene

Define distance

3.2. Or enter region Example:Chr01:20000000-23000000

4. One-to-its-best block

5. GO Download image

MicroCollinearity

1. Select first assembly

2. Select other assemblies

3.1. Enter a gene example

Define distance

3.2. Or define region (optional)

4. Plot options (optional)

Select colours and sizes

GOEnrichment

1. Select species

2. Select task

Enter foreground gene list example

Or upload file

Upload a file contaioning foreground genes Example

3. Enter customized background genes (optional)

4. Parameter control (optional)

Significance value

Multi-test adjustment

Min size of genes in background

Max size of genes in background

Select group

GeneDescription

1. Select assembly

2. Enter gene list example

Or upload file

3. GO

4. Download results as CSV

JBrowse

2. Enter gene list

3.

Multiple Sequence Alignment (MSA):

2. Enter a gene

1. Select first assembly

3.2. Or enter region
Example:Chr01:20000000-23000000

5.

3.1. Enter a gene

Enter foreground gene list

2. Enter gene list

3.