DeNovoGenesDB

S. cerevisiae

The Rules Panel enables users to set the desired criteria for identifying de novo emerged genes, while the Output Panel facilitates filtering and analysis of the resulting list.

The default table displayed was generated with the default parameters of the DENSE workflow:

• TRGs at genus level
• Hit in non-coding regions (NCR) of outgroup species validated
• Microsynteny validated (1 on core up- & downstream in a window of 4 genes)

However, you can try out your own combination of some of these settings using the Rules box below.

Visible columns

• CDS
• Code
• Gene
• Phylostratum
• Rank
• Protein size
• Is denovo?
• Is orphan?
• Is TRG?

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CDS	Code	Gene	Phylostratum	Rank	Protein size	Is denovo?	Is orphan?	Is TRG?
rna-NM_001387383.1	NM_001387383.1	—	Saccharomycetaceae	9	118	✘	✘	✘
rna-NM_001395031.1	NM_001395031.1	—	Possible contamination or HGT	X	57	✘	✘	✘
rna-NM_001395032.1	NM_001395032.1	—	Possible contamination or HGT	X	57	✘	✘	✘
rna-NM_001395033.1	NM_001395033.1	HHY1	Saccharomyces cerevisiae	11	102	✔	✔	✔
rna-NM_001395034.1	NM_001395034.1	IRC9	Saccharomyces cerevisiae	11	130	✔	✘	✔
rna-NM_001395035.1	NM_001395035.1	APQ13	Saccharomyces cerevisiae	11	138	✔	✔	✔
rna-NM_001395036.1	NM_001395036.1	—	Saccharomyces	10	78	✘	✘	✔
rna-NM_001395037.1	NM_001395037.1	—	Saccharomyces cerevisiae S288C	12	84	✔	✔	✔
rna-NM_001395038.1	NM_001395038.1	—	Saccharomyces	10	90	✔	✔	✔
rna-NM_001395039.1	NM_001395039.1	—	Saccharomyces	10	155	✔	✔	✔
rna-NM_001395040.1	NM_001395040.1	—	Saccharomyces cerevisiae	11	121	✔	✔	✔
rna-NM_001395041.1	NM_001395041.1	IRC16	Saccharomyces	10	119	✔	✘	✔
rna-NM_001395042.1	NM_001395042.1	SLM6	Saccharomyces cerevisiae	11	150	✔	✔	✔
rna-NM_001395731.1	NM_001395731.1	OTO1	Saccharomyces cerevisiae S288C	12	57	✔	✔	✔

Total number of records: 5999

Records per page: 10 | 20 | 50 | 100

Rules ^†

Hit in NCR*

Hit in NCR* and valid synteny

Hit in NCR* in outgroup

Hit in NCR* in outgroup and valid synteny

*NCR: Non-Coding Regions Apply

Output

Search entry by name

Select de novo status

All

Yes

No

Select orphan status

All

Yes

No

Select phylostratum 1 - cellular organisms 2 - Eukaryota 3 - Opisthokonta 4 - Fungi 5 - Dikarya 6 - Ascomycota 7 - saccharomyceta 8 - Saccharomycetales 9 - Saccharomycetaceae 10 - Saccharomyces 11 - Saccharomyces cerevisiae 12 - Saccharomyces cerevisiae S288C X - Possible contamination or HGT

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Phylogeny

__ S. cerevisiae __| __| |__ S. paradoxus | | __| |_____ S. mikatae | | __| |________ S. kudriavzevii | | _| |___________ S. arboricola | |______________ S. bayanus