Annotation of co-expression genes

PH01000174G0870's details annotation

1.Annotation

ICBR annotation: XRN 5'-3' exonuclease N-terminus domain containing protein, expressed

Blast result AT1G54490 : 0.00E+00
Blast annotation: exoribonuclease 4

2.Location

Scaffold: PH01000174
Strand: -

RegionStartEnd
gene579455591752
mRNA579455591752
exon579455580689
exon580911580987
exon581683581758
exon581847581951
exon582069582223
exon582372582446
exon582539582579
exon582773582849
exon582949583077
exon584257584327
exon585859585957
exon587995588066
exon588933589019
exon589273589350
exon589458589622
exon589827589961
exon590099590161
exon590240590359
exon590461590652
exon590727590803
exon590881590983
exon591093591752
CDS579885580689
CDS580911580987
CDS581683581758
CDS581847581951
CDS582069582223
CDS582372582446
CDS582539582579
CDS582773582849
CDS582949583077
CDS584257584327
CDS585859585957
CDS587995588066
CDS588933589019
CDS589273589350
CDS589458589622
CDS589827589961
CDS590099590161
CDS590240590359
CDS590461590652
CDS590727590803
CDS590881590983
CDS591093591299

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 networkCFinderM000112SNF2 Transcription_Regulator(from iTAK)
chromatin remodeling,
ATP-dependent chromatin remodeling,
CE8 Carbohydrate_Esterases
nucleic acid binding,
helicase activity,
5'-3' exoribonuclease activity,
nucleosome binding,
GT1 GlycosylTransferases
cell wall modification,
nucleus,
cell wall,
nucleobase-containing compound metabolic process,
exonuclease activity,
coexpression networkCFinderM000201RLK-Pelle_CrRLK1L-1 (from iTAK)
5'-3' exoribonuclease activity,
nucleobase-containing compound metabolic process,
Ribosome_biogenesis_in_eukaryotes
RNA_degradation
coexpression networkCFinderM001305SNF2 Transcription_Regulator(from iTAK)
5'-3' exoribonuclease activity,
nucleic acid binding,
intracellular,
large ribosomal subunit,
nucleobase-containing compound metabolic process,
exonuclease activity,
coexpression networkCFinderM001812intracellular transport,
5'-3' exoribonuclease activity,
nucleobase-containing compound metabolic process,
exonuclease activity,
Ribosome_biogenesis_in_eukaryotes
RNA_degradation

5.Cis-elements

Details in 3kb promoter region

6.Expression profilings


7.Gene family

CategoryFamily
nullnull

8.Protein domain

Pfam AccessionPfam AnnotationAlignment StartAlignment Start
PF03159.17XRN_N1254
PF00098.22zf-CCHC264278

9.KEGG Pathway

PathwayKEGG OrthologPathway IDKO
Ribosome biogenesis in eukaryotes5'-3' exoribonuclease 2 [EC:3.1.13.-]ko03008K12619
RNA degradation5'-3' exoribonuclease 2 [EC:3.1.13.-]ko03018K12619

10.Gene Ontology

GO AccessionGO Annotation
GO:0003676nucleic acid binding
GO:0004527exonuclease activity
GO:00045345'-3' exoribonuclease activity
GO:0005622intracellular
GO:0005634nucleus
GO:0006139nucleobase-containing compound metabolic process
GO:0008270zinc ion binding

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