Annotation of co-expression genes

PH01000391G0210's details annotation

1.Annotation

ICBR annotation: cleavage and polyadenylation specificity factor, putative, expressed

Blast result AT4G05420 : 0.00E+00
Blast annotation: damaged DNA binding protein 1A

2.Location

Scaffold: PH01000391
Strand: +

RegionStartEnd
gene144234154432
mRNA144234154432
exon144234144796
exon147033147245
exon147358147464
exon147553147661
exon148061148261
exon148340148555
exon148838148948
exon150071150181
exon150857151132
exon151204151478
exon152558152730
exon152875152909
exon153065153349
exon153468154432
CDS144425144796
CDS147033147245
CDS147358147464
CDS147553147661
CDS148061148261
CDS148340148555
CDS148838148948
CDS150071150181
CDS150857151132
CDS151204151478
CDS152558152730
CDS152875152909
CDS153065153349
CDS153468154049

UCSC genome browser

3.Network

Co-expression Network CategoryGlobal NetworkConditional Network
Co-expression Positive Top300 PCC genelist

MR network genelist 		Top300 PCC genelist

MR network genelist
Co-expression Negative Top300 PCC genelist

MR network genelist 		Top300 PCC genelist

MR network genelist
Predict protein-portein interaction details
miRNA-targets relationshipnull
 

4.Functional module

MethodModule IDFunction Annotation
coexpression networkCFinderM000809glucose-6-phosphate isomerase activity,
transcription factor TFIID complex,
gluconeogenesis,
transcription initiation, DNA-dependent,
glycolysis,
Nucleotide_excision_repair
Ubiquitin_mediated_proteolysis
coexpression networkCFinderM001210Peroxisome
protein refolding,
Nucleotide_excision_repair
Ubiquitin_mediated_proteolysis
cellular protein metabolic process,
coexpression networkCFinderM001607mediator complex,
nucleus,
regulation of transcription from RNA polymerase II promoter,
Nucleotide_excision_repair
Ubiquitin_mediated_proteolysis
RNA_polymerase_II_transcription_cofactor_activity
coexpression networkCFinderM001640TLK (from iTAK)
transcription factor TFIID complex,
SNF2 Transcription_Regulator(from iTAK)
transcription initiation, DNA-dependent,
Nucleotide_excision_repair
Ubiquitin_mediated_proteolysis

5.Cis-elements

Details in 3kb promoter region

6.Expression profilings


7.Gene family

CategoryFamily
nullnull

8.Protein domain

Pfam AccessionPfam AnnotationAlignment StartAlignment Start
PF10433.8MMS1_N125444
PF10433.8MMS1_N443517
PF03178.14CPSF_A724990

9.KEGG Pathway

PathwayKEGG OrthologPathway IDKO
Ubiquitin mediated proteolysisDNA damage-binding protein 1ko04120K10610
Nucleotide excision repairDNA damage-binding protein 1ko03420K10610

10.Gene Ontology

GO AccessionGO Annotation
GO:0003676nucleic acid binding
GO:0005515protein binding
GO:0005634nucleus

Maintained by Xuelian Ma - Zhen Su's Lab - China Agricultural University
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