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Data released on February 10, 2017

Supporting data for "A reference gene set construction using RNA-seq of multiple tissues of Chinese Giant Salamander, Andrias davidianus"

Geng, X; Li, W; Shang, H; Gou, Q; Zhang, F; Zang, X; Zeng, B; Li, J; Wang, Y; Ma, J; Guo, J; Jian, J; Chen, B; Qiao, Z; Zhou, M; Wei, H; Fang, X; Xu, C (2017): Supporting data for "A reference gene set construction using RNA-seq of multiple tissues of Chinese Giant Salamander, Andrias davidianus" GigaScience Database. http://dx.doi.org/10.5524/100277 RIS BibTeX Text

Chinese giant salamander (CGS) is the largest extant amphibian species in the world. Owing to its evolutionary position and four peculiar phenomenon of life (longevity, starvation tolerance, regenerative ability, and hatch without sunshine), it is an invaluable model species for research. However, lack of genomic resources and its huge (~50 GB) difficult to assemble genome, leads to slow study progression in this field. Here we report the sequenced transcriptome of more than twenty tissues from adult specimens using Illumina Hiseq 2000 technology, and a total of 93,366 non-redundant transcripts with a mean length of 1,326 bp. We for the first time developed an efficient pipeline to construct a high quality reference gene set of CGS and obtained 26,135 coding genes. BUSCO and homologous assessment showed that our assembly captured 70.6 % of vertebrate universal single-copy orthologs.

Contact Submitter

Related manuscripts:

doi:10.1093/gigascience/gix006

Accessions (data included in GigaDB):

BioProject: PRJNA350354
SRA: SRP092015

Transcriptomic

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Funding:

  • Funding body - National Natural Science Foundation of China
  • Award ID - 31572270
  • Funding body - Major Scientific and Technological Projects of Henan
  • Award ID - 111100910600

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
SAMN05938519141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from kidney of An...
Sex:female
Life stage:adult
...
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SAMN05938520141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from liver of And...
Sex:female
Life stage:adult
...
+
SAMN05938521141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from long bone of...
Sex:female
Life stage:adult
...
+
SAMN05938522141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from lung of Andr...
Sex:female
Life stage:adult
...
+
SAMN05938523141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from maxillary of...
Sex:female
Life stage:adult
...
+
SAMN05938524141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from muscle of An...
Sex:female
Life stage:adult
...
+
SAMN05938525141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from ovary of And...
Sex:female
Life stage:adult
...
+
SAMN05938526141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from pancreas ofA...
Sex:female
Life stage:adult
...
+
SAMN05938527141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from skull of And...
Sex:female
Life stage:adult
...
+
SAMN05938528141262 Chinese giant salamanderAndrias davidianus Description:RNA sample extracted from small intest...
Sex:female
Life stage:adult
...
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Displaying 11-20 of 24 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 
Coding sequenceFASTA31.16 MB2017-02-07
Expression dataCSV25.73 MB2017-02-07
protein sequenceFASTA10.89 MB2017-02-07
transcriptome sequenceFASTA122.13 MB2017-02-07
BLASTTEXT154.29 MB2017-02-07
BLASTTEXT270.37 MB2017-02-07
annotationTEXT4.63 MB2017-02-07
BLASTTEXT115.93 MB2017-02-07
BLASTTEXT36.26 MB2017-02-07
otherTEXT5.66 MB2017-02-07
Displaying 1-10 of 15 File(s).

History:

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