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Annotation of co-expression genes

Gh_A01G0139's details annotation

1.Network

Network CategoryDirect Relationship Components
Coexpression PositiveGh_A11G2259  Gh_D05G0635  Gh_D10G1271  Gh_A13G0378  Gh_A12G1617  Gh_D01G1508  Gh_D11G1286  Gh_D06G2350  Gh_D13G1199  Gh_A01G1349  ...

Top300 PCC genelist          MR network genelist
Coexpression NegativeGh_A11G2293  Gh_A11G1211  Gh_D13G0698  Gh_A13G1729  Gh_D04G1608  Gh_D05G2744  Gh_A11G1065  Gh_D01G0195  Gh_A04G1134  Gh_A05G2469  ...

Top300 PCC genelist          MR network genelist
Predict protein-portein interactionGh_A08G1122  Gh_A02G0306  Gh_A10G0254  Gh_A12G1542  Gh_D12G1111  Gh_A11G1718  Gh_D12G0618  Gh_D13G1590  Gh_D10G0254  Gh_D11G0056  details...
miRNA-targets relationship

Somatic Embryo Network: A custom network

2.Functional module

MethodModule IDFunction Annotation

3.Cis-elements

Details in 3kb promoter region

4.Expression profilings


UCSC genome browser

5.Location

Chromosome: A01
Strand: -

RegionStartEnd
gene12844021286452
mRNA12844021286452
CDS12859971286452
CDS12857001285840
CDS12852211285565
CDS12850741285136
CDS12848381284957
CDS12844021284551

6.Annotation

Blast result AT2G20570: 1.00E-73
Annotation: Encodes GLK1, Golden2-like 1, one of a pair of partially redundant nuclear transcription factors that regulate chloroplast development in a cell-autonomous manner. GLK2, Golden2-like 2, is encoded by At5g44190. GLK1 and GLK2 regulate the expression of the photosynthetic apparatus.

7.Ortholog in cotton

VarietyGene IDAlignment Start(D2-A2)Alignment End(D2-A2)Blast Evalue
G. arboreumCotton_A_000641-1424-4240
G. arboreumCotton_A_000621-1424-4240
G. raimondiiGorai.002G020300.11-1424-4240
G. raimondiiGorai.008G155000.11-1424-4274.00E-130

8.Gene family

CategoryFamily
Transcriptional RegulatorG2-like

9.Protein domain

Pfam AccessionPfam AnnotationAlignment StartAlignment Start
PF00249.26Myb_DNA-binding153202

10.KEGG Pathway

PathwayKEGG OrthologPathway IDKO

11.Gene Ontology

GO AccessionGO Annotation
GO:0003682chromatin binding

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