Details
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Type:
Task
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Status: Closed (View Workflow)
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Priority:
Major
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: None
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Labels:None
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Story Points:2
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Epic Link:
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Sprint:Fall 3 2022 Sep 26, Fall 4 2022 Oct 10, Fall 5 2022 Oct 24
Description
Annotate the SL5 genes with RNA processing related functions.
Create a table that reports functions for each of the "SL" identifiers (transcript or gene name is fine)
Also, there can be a many-to-many relationship! For example, one gene or transcript (column 1) could have multiple functional assignments (column 2).
Predicted:
- SR protein annotations (most likely to be alternatively spliced in response to a treatment)
- RNA-binding proteins
- Protein components of the spliceosome
- snRNP RNAs (if possible)
References:
- Implementing a Rational and Consistent Nomenclature for Serine/Arginine-Rich Protein Splicing Factors (SR Proteins) in Plants = https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2965536/
- Gene Ontology classifications could be used, would need probably to transfer these over from previous annotation releases
Attachments
Issue Links
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- Closed
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-2993 [ 21429 ] |
| Sprint | Fall 3 2022 Sep 26 [ 155 ] | |
| Assignee | Ann Loraine [ aloraine ] |
| Description |
Annotate the SL5 genes with RNA processing related functions:
Predicted: * SR protein annotations (most likely to be alternatively spliced in response to a treatment) * RNA-binding proteins * Protein components of the spliceosome * snRNP RNAs (if possible) References: * Implementing a Rational and Consistent Nomenclature for Serine/Arginine-Rich Protein Splicing Factors (SR Proteins) in Plants = https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2965536/ * |
Annotate the SL5 genes with RNA processing related functions.
Create a table that reports functions for each of the "SL" identifiers (transcript or gene name is fine) Also, there can be a many-to-many relationship! For example, one gene or transcript (column 1) could have multiple functional assignments (column 2). Predicted: * SR protein annotations (most likely to be alternatively spliced in response to a treatment) * RNA-binding proteins * Protein components of the spliceosome * snRNP RNAs (if possible) References: * Implementing a Rational and Consistent Nomenclature for Serine/Arginine-Rich Protein Splicing Factors (SR Proteins) in Plants = https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2965536/ * Gene Ontology classifications could be used, would need probably to transfer these over from previous annotation releases |
| Assignee | Robert Reid [ robertreid ] |
| Sprint | Fall 3 2022 Sep 26 [ 155 ] | Fall 3 2022 Sep 26, Fall 4 2022 Oct 10 [ 155, 156 ] |
| Rank | Ranked higher |
| Sprint | Fall 3 2022 Sep 26, Fall 4 2022 Oct 10 [ 155, 156 ] | Fall 3 2022 Sep 26, Fall 4 2022 Oct 10, Fall 5 2022 Oct 24 [ 155, 156, 157 ] |
| Rank | Ranked higher |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |