Annotation of co-expression genes

PH01006233G0050's details annotation

1.Annotation

ICBR annotation: 3'-5' exonuclease, putative, expressed

Blast result AT2G32415 : 2.00E-160
Blast annotation: Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain

2.Location

Scaffold: PH01006233
Strand: -

RegionStartEnd
gene2496830420
mRNA2496830420
exon2496825310
exon2553126231
exon2638726885
exon2698527493
exon2797028008
exon2810830420
CDS2524125310
CDS2553126231
CDS2638726885
CDS2698527493
CDS2797028008
CDS2810828233

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 null
miRNA-targets relationshipnull
 

4.Functional module

MethodModule IDFunction Annotation
coexpression networkCFinderM000202peroxiredoxin activity,
antioxidant activity,
RNA_degradation
GRAS Transcription_Regulator(from PlantTFDB)
MYB_related Transcription_Regulator(from PlantTFDB)
MYB-related Transcription_Regulator(from iTAK)
coexpression networkCFinderM000355OFP Transcription_Regulator(from iTAK)
electron transport chain,
RNA_degradation
Photosynthesis
coexpression networkCFinderM000357RNA_degradation
steroid biosynthetic process,
S-adenosylmethionine-dependent methyltransferase activity,
coexpression networkCFinderM000509Whirly Transcription_Regulator(from PlantTFDB)
protochlorophyllide reductase activity,
Photosynthesis
Porphyrin_and_chlorophyll_metabolism
photosystem II,
oxygen evolving complex,
RNA_degradation
coexpression networkCFinderM000510Porphyrin_and_chlorophyll_metabolism
protochlorophyllide reductase activity,
glutamate-1-semialdehyde 2,1-aminomutase activity,
tetrapyrrole biosynthetic process,
sodium ion transport,
RNA_degradation
coexpression networkCFinderM000775Ribosome
iron_ion_transmembrane_transport
translation,
iron ion transmembrane transporter activity,
structural constituent of ribosome,
intracellular,
RNA_degradation
coexpression networkCFinderM000982RNA_degradation
folic acid-containing compound biosynthetic process,
methylenetetrahydrofolate_dehydrogenase_(NADP+)_activity
cullin-RING ubiquitin ligase complex,
coexpression networkCFinderM001222aminoacylase activity,
RNA_degradation
coexpression networkCFinderM001489Steroid_hormone_biosynthesis
Fatty_acid_elongation
Biosynthesis_of_unsaturated_fatty_acids
RNA_degradation
coexpression networkCFinderM001576RNA_degradation
photosystem II,
extrinsic to membrane,
oxygen evolving complex,
coexpression networkCFinderM001813GT48 GlycosylTransferases
mitochondrial respiratory chain complex IV,
mitochondrial inner membrane,
1,3-beta-D-glucan synthase complex,
S-adenosylmethionine-dependent methyltransferase activity,
cytochrome-c oxidase activity,
steroid biosynthetic process,
(1->3)-beta-D-glucan biosynthetic process,
metabolic process,
RNA_degradation
Oxidative_phosphorylation
cellular metabolic process,
coexpression networkCFinderM001864GH63 Glycoside_Hydrolases
oligosaccharide metabolic process,
mannosyl-oligosaccharide glucosidase activity,
oxygen evolving complex,
photosystem II,
extrinsic to membrane,
Photosynthesis

5.Cis-elements

Details in 3kb promoter region

6.Expression profilings


7.Gene family

CategoryFamily
nullnull

8.Protein domain

Pfam AccessionPfam AnnotationAlignment StartAlignment Start
PF00570.22HRDC4989

9.KEGG Pathway

PathwayKEGG OrthologPathway IDKO
RNA degradationexosome complex exonuclease RRP6 [EC:3.1.13.-]ko03018K12591

10.Gene Ontology

GO AccessionGO Annotation
GO:0000166nucleotide binding
GO:0003676nucleic acid binding
GO:0003824catalytic activity
GO:0005622intracellular
GO:0044237cellular metabolic process

Maintained by Xuelian Ma - Zhen Su's Lab - China Agricultural University
© 2017 All Rights Reserved.