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:1
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Epic Link:
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Sprint:Summer 4 2022 July 4
Description
https://www.nature.com/articles/s41586-022-04808-9
Called SL5.0, it includes gene model annotations that document / predict alternative splicing forms.
For this task, obtain the sequence and annotations and add them to IGB Quickload as a new version of the tomato genome.
Data:
- data directory: https://solgenomics.net/ftp/genomes/TGG/
- gene models: https://solgenomics.net/ftp/genomes/TGG/gff/SL5.0.gff3.gz
- genome assembly sequence: https://solgenomics.net/ftp/genomes/TGG/genome/SL5.0.fasta.gz
Attachments
Issue Links
Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-2993 [ 21429 ] |
| Description |
https://www.nature.com/articles/s41586-022-04808-9
Called SL5.0, it includes gene model annotations that document / predict alternative splicing forms. For this task, obtain the sequence and annotations and add them to IGB Quickload as a new version of the tomato genome. Data: * https://solgenomics.net/ftp/genomes/TGG/ * gene models: https://solgenomics.net/ftp/genomes/TGG/gff/SL5.0.gff3.gz * https://solgenomics.net/ftp/genomes/TGG/genome/SL5.0.fasta.gz |
| Description |
https://www.nature.com/articles/s41586-022-04808-9
Called SL5.0, it includes gene model annotations that document / predict alternative splicing forms. For this task, obtain the sequence and annotations and add them to IGB Quickload as a new version of the tomato genome. Data: * https://solgenomics.net/ftp/genomes/TGG/ * gene models: https://solgenomics.net/ftp/genomes/TGG/gff/SL5.0.gff3.gz * https://solgenomics.net/ftp/genomes/TGG/genome/SL5.0.fasta.gz |
https://www.nature.com/articles/s41586-022-04808-9
Called SL5.0, it includes gene model annotations that document / predict alternative splicing forms. For this task, obtain the sequence and annotations and add them to IGB Quickload as a new version of the tomato genome. Data: * data directory: https://solgenomics.net/ftp/genomes/TGG/ * gene models: https://solgenomics.net/ftp/genomes/TGG/gff/SL5.0.gff3.gz * genome assembly sequence: https://solgenomics.net/ftp/genomes/TGG/genome/SL5.0.fasta.gz |
| Assignee | Ann Loraine [ aloraine ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Attachment | ITAG5.0-1.png [ 17243 ] |
| Attachment | ITAG5.0-2.png [ 17244 ] |
| Attachment | ITAG5.0-3.png [ 17245 ] | |
| Attachment | ITAG5.0-4.png [ 17246 ] | |
| Attachment | ITAG5.0-5.png [ 17247 ] |
| Attachment | ITAG5.0-3.png [ 17245 ] |
| Attachment | ProtAnnot.paxml [ 17248 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Ann Loraine [ aloraine ] |
| Story Points | 2 | 0.5 |
| Story Points | 0.5 | 1 |
| Assignee | Nowlan Freese [ nfreese ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Assignee | Nowlan Freese [ nfreese ] | Ann Loraine [ aloraine ] |
| 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 ] |