DeNovoGenesDB

M. musculus

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 Murinae 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_001003920.3	NM_001003920.3	Brsk1	cellular organisms	1	778	✘	✘	✘
rna-NM_001003947.2	NM_001003947.2	Cyp4x1	cellular organisms	1	507	✘	✘	✘
rna-NM_001003948.2	NM_001003948.2	Pid1	Bilateria	6	217	✘	✘	✘
rna-NM_001003949.4	NM_001003949.4	Tmem259	cellular organisms	1	574	✘	✘	✘
rna-NM_001003950.3	NM_001003950.3	Rab3ip	Opisthokonta	3	428	✘	✘	✘
rna-NM_001003960.4	NM_001003960.4	Dnmt3b	cellular organisms	1	839	✘	✘	✘
rna-NM_001003961.4	NM_001003961.4	Dnmt3b	cellular organisms	1	859	✘	✘	✘
rna-NM_001003963.4	NM_001003963.4	Dnmt3b	cellular organisms	1	796	✘	✘	✘
rna-NM_001003972.2	NM_001003972.2	Senp7	Amniota	15	254	✘	✘	✘
rna-NM_001003973.2	NM_001003973.2	Senp7	Amniota	15	227	✘	✘	✘
rna-NM_001004061.2	NM_001004061.2	Fam170a	Sarcopterygii	12	333	✘	✘	✘
rna-NM_001004066.3	NM_001004066.3	Zfp386	cellular organisms	1	626	✘	✘	✘
rna-NM_001004139.2	NM_001004139.2	Zfp619	cellular organisms	1	1161	✘	✘	✘
rna-NM_001004142.2	NM_001004142.2	Nlrp1a	cellular organisms	1	1182	✘	✘	✘
rna-NM_001004145.3	NM_001004145.3	Nlrp4g	cellular organisms	1	738	✘	✘	✘

Total number of records: 40867

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

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Select orphan status

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No

Select phylostratum 1 - cellular organisms 2 - Eukaryota 3 - Opisthokonta 4 - Metazoa 5 - Eumetazoa 6 - Bilateria 7 - Deuterostomia 8 - Chordata 9 - Vertebrata 10 - Gnathostomata 11 - Euteleostomi 12 - Sarcopterygii 13 - Dipnotetrapodomorpha 14 - Tetrapoda 15 - Amniota 16 - Mammalia 17 - Theria 18 - Eutheria 19 - Boreoeutheria 20 - Euarchontoglires 21 - Glires 22 - Rodentia 23 - Myomorpha 24 - Muroidea 25 - Muridae 26 - Murinae 27 - Mus 28 - Mus 29 - Mus musculus X - Unknown X - Possible contamination or HGT

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Phylogeny

____ M. musculus __| __| |____ M. caroli | | __| |_______ M. pahari | | | | _______ A. niloticus | |__| | |_______ G. surdaster | _| __ R. rattus |__________| | |__ R. norvegicus | |_____________ M. coucha