GONUTS has been updated to MW1.31 Most things seem to be working but be sure to report problems.

Have any questions? Please email us at ecoliwiki@gmail.com

Cacao

Jump to: navigation, search
GO:0045892negative regulation of transcription, DNA-templatedPMID:19703315ECO:0001819 IDA: Inferred from Direct AssayBiological Process
Figure 5 shows the primer extension analysis of the sycO-ypkA-yopJ operon with and without CRP. A wild type with CRP and a strain without CRP were used. The WT shows no primer extension product while the stain without CRP shows product. The presence of the primer extension product in deleted CRP indicates mRNA presence. The lack of primer extension product in the WT indicates no mRNA presence. Because mRNA presence is high only in the deleted CRP strain, CRP is repressing transcription of the sycO-ypkA-yopJ operon.
complete
This annotation made on page: YERPE:A0A384L3J4
By: MGuldan (group Team Green A 2019) on 2019-04-10 13:52:10 CDT.




You must be logged in to challenge this annotation.

Entry TypeChallenging User,GroupTime/DateChallenge ReasonPoints/Assessment
ChallengeKAtanasoff,
Team Blue A 2019
2019-04-15 09:38:28 CDT

Your ECO term should be the child term "primer extension assay evidence used in manual assertion" (ECO:00055657). Also, I think the proper experimental evidence code should be IMP (Inferred from Mutant Phenotype) since the authors introduced a deletion mutation to knock out the crp gene and are comparing wild-type to Δcrp in the figure you cite.

1
Public
Assessment
Ivanerill2019-04-20 04:46:37 CDTNo notes given.Acceptable
Protein
Publication
Qualifier
Go term
Evidence
With/From
Notes
Unique/Original
Public
Assessment
DanielRenfro2019-04-18 16:30:43 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier GO ID GO term name Reference ECO ID ECO term name with/from Aspect Extension Notes Status
GO:0045892 negative regulation of transcription, DNA-templated PMID:19703315 ECO:0005657 IDA: Inferred from Direct Assay P Figure 5 shows the primer extension analysis of the sycO-ypkA-yopJ operon with and without CRP. A wild type with CRP and a strain without CRP were used. The WT shows no primer extension product while the strain without CRP shows product. The presence of the primer extension product in deleted CRP indicates mRNA presence. The lack of primer extension product in the WT indicates no mRNA presence. Because mRNA presence is high only in the deleted CRP strain, CRP is repressing transcription of the sycO-ypkA-yopJ operon. complete
CACAO 13723
on YERPE:A0A384L3J4
Flagged
Public
Assessment
Ivanerill2019-04-18 10:22:44 CDT

Notes: "the stain" --> please revise

Acceptable
Protein
Publication
Qualifier
Go term
Evidence
With/From
Notes
Unique/Original
Public
Assessment
DanielRenfro2019-04-17 10:17:11 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier GO ID GO term name Reference ECO ID ECO term name with/from Aspect Extension Notes Status
GO:0045892 negative regulation of transcription, DNA-templated PMID:19703315 ECO:0005657 IDA: Inferred from Direct Assay P Figure 5 shows the primer extension analysis of the sycO-ypkA-yopJ operon with and without CRP. A wild type with CRP and a strain without CRP were used. The WT shows no primer extension product while the stain without CRP shows product. The presence of the primer extension product in deleted CRP indicates mRNA presence. The lack of primer extension product in the WT indicates no mRNA presence. Because mRNA presence is high only in the deleted CRP strain, CRP is repressing transcription of the sycO-ypkA-yopJ operon. complete
CACAO 13723
on YERPE:A0A384L3J4
Flagged