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Data released on April 26, 2014

Genomic data of the Common Cuckoo (Cuculus canorus).

Gilbert, M, P; Jarvis, E, D; Li, B; Li, C; The Avian Genome Consortium, ; Wang, J; Zhang, G (2014): Genomic data of the Common Cuckoo (Cuculus canorus). GigaScience Database. http://dx.doi.org/10.5524/101009 RIS BibTeX Text

The Common Cuckoo (Cuculus canorus canorus (Linnaeus, 1758)), also known as the European Cuckoo, is a widespread summer migrant to Europe and Asia. It is a brood parasite, meaning it lays eggs in other birds' nests; particularly in Dunnock's, Meadow Pipit's, and Eurasian Reed Warbler's nests.
These data have been produced as part of the G10K and Avian Phylogenomics Projects. DNA was collected from a male specimen in Denmark; voucher 137750 in the Natural History Museum of Denmark. We sequenced the genome to a depth of approximately 100X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb).
The assembled scaffolds of high quality sequences total 1.15Gb, with the contig and scaffold N50 values of 31kb and 3Mb respectively. We identified 15,889 protein-coding genes with a mean length of 20kb.

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Related manuscripts:

doi:10.1186/2047-217X-3-26
doi:10.1126/science.1251385
doi:10.1126/science.1253451

Related datasets:

doi:10.5524/101009 IsSupplementTo doi:10.5524/101000

Accessions (data included in GigaDB):

BioProject: PRJNA212869
SRA: SRP028317

Projects:



Genomic

http://gigadb.org/images/data/cropped/bird/cuculus_canorus.png

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Cuckoo -B-45971, TG7, TG855661Common CuckooCommon CuckooCuculus canorus Source material identifiers:Erich Jarvis & Tom Gil...
Estimated genome size:unknown size
Funding source:BGI
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Displaying 1-1 of 1 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
Cuckoo -B-45971, TG7, TG8Coding sequenceFASTA6.72 MB2014-04-26
Cuckoo -B-45971, TG7, TG8Sequence assemblyFASTA334.25 MB2014-04-26
Cuckoo -B-45971, TG7, TG8AnnotationGFF1.66 MB2014-04-26
Cuckoo -B-45971, TG7, TG8Protein sequenceFASTA4.36 MB2014-04-26
Cuckoo -B-45971, TG7, TG8Repeat sequenceUNKNOWN10.87 MB2014-04-26
Displaying 1-5 of 5 File(s).

History:

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