DeNovoDB

D. melanogaster

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.

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CDS	Code	Gene	Phylostratum	Rank	Protein size	Is denovo?	Is orphan?	Is TRG?
rna-NM_001007095.3	NM_001007095.3	CG42637	cellular organisms	1	1525	✘	✘	✘
rna-NM_001007096.3	NM_001007096.3	CG42637	cellular organisms	1	1525	✘	✘	✘
rna-NM_001014453.2	NM_001014453.2	PNUTS	Eumetazoa	5	1135	✘	✘	✘
rna-NM_001014454.2	NM_001014454.2	PNUTS	Eumetazoa	5	628	✘	✘	✘
rna-NM_001014455.2	NM_001014455.2	PNUTS	Eumetazoa	5	628	✘	✘	✘
rna-NM_001014457.3	NM_001014457.3	Obp22a	melanogaster group	26	117	✘	✘	✔
rna-NM_001014458.5	NM_001014458.5	CG33543	cellular organisms	1	468	✘	✘	✘
rna-NM_001014459.2	NM_001014459.2	dpr3	Eukaryota	2	522	✘	✘	✘
rna-NM_001014460.3	NM_001014460.3	sau	cellular organisms	1	294	✘	✘	✘
rna-NM_001014461.2	NM_001014461.2	CG9967	Opisthokonta	3	298	✘	✘	✘
rna-NM_001014462.3	NM_001014462.3	Rbp9	cellular organisms	1	439	✘	✘	✘
rna-NM_001014463.4	NM_001014463.4	tim	Eukaryota	2	1099	✘	✘	✘
rna-NM_001014464.2	NM_001014464.2	for	cellular organisms	1	934	✘	✘	✘
rna-NM_001014465.3	NM_001014465.3	smog	Opisthokonta	3	944	✘	✘	✘
rna-NM_001014467.2	NM_001014467.2	qtc	Bilateria	6	690	✘	✘	✘

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Total number of records: 30149

Records per page: 10 | 20 | 50 | 100

Phylogeny
                   _______ D. melanogaster
                  |
                  |   ____ D. simulans
                  |__|
                __|  |____ D. sechellia
               |  |
               |  |_______ D. mauritiana
              _|
             | |   _______ D. erecta
             | |  |
             | |__|      _ D. santomea
          ___|    |   __|
         |   |    |__|  |_ D. yakuba
         |   |       |
         |   |       |____ D. teissieri
         |   |
         |   |____________ D. eugracilis 
      ___|
     |   |       _________ D. rhopaloa
     |   |     _|
     |   |____| |_________ D. elegans
     |   |    |
     |   |    |___________ D. ficusphila
  ___|   |
 |   |   |      __________ D. pseudotakahashii
 |   |   |   __|
 |   |   |  |  |__________ D. takahashii
 |   |   |__|
 |   |      |   __________ D. biarmipes
 |   |      |__|
 |   |         |__________ D. suzukii
 |   |
_|   |      ______________ D. serrata
 |   |   __|
 |   |  |  |______________ D. birchii
 |   |  |
 |   |__|_________________ D. kikkawai
 |      |
 |      |_________________ D. jambulina
 |
 |    ____________________ D. ananassae
 |___|
     |       _____________ D. pseudoananassae
     |______|
            |_____________ D. bipectinata

^†: Switching between rules will not affect the number of records in the table. It will, however, affect the definition of the "Is denovo?" column.

DeNovoGenesDB

D. melanogaster

Rules ^†

Output

Phylogeny

D. melanogaster

Rules †

Output

Phylogeny

Rules ^†