Summary
Name
Quercus alba - Transcriptome Assembly WO454_v2
Resource Type
Transcriptome Assembly
Organism
Data Source
Source Name
: de novo assembly
Source Version
: 081508
Date Performed
Thursday, August 14, 2008 - 21:00
Number of transcripts
22102
Average Transcript Length
431
Program, Pipeline, Workflow or Method Name
SeqManPro
Program Version
8. 0.2
Description and Download
Description: 
This transcriptome assembly was originally hosted on the Fagaceae Genomics Web (FGW), which has now been archived. Sequence information is maintained here in downloadable format only.
FGW NameWO454 Unigene V2
Date2008-08-15
SoftwareSeqManPro
Software Version8.0.2
Number of Contigs22102
Libraries Included in Assembly2 (WOA, WOB)

Assembly Statistics

Number of Transcripts22,102
Transcript N50448 bp
Transcript Average Length431 bp
Number of Proteins9,374
Protein N50159 aa
Protein Average Length163 aa
Download assembled data:
Contigs (fasta format)
Predicted ORFs (fasta format)
Ace file

Annotation

BLAST against the Swiss-prot protein database:
Blastx, 1e-4 cutoff - 54% of transcripts matched a swiss-prot entry
Blastp, 1e-4 cutoff - 75% of proteins matched a swiss-prot entry
BLAST against the Trembl protein database, only plant entries:
Blastx, 1e-4 cutoff - 76% of transcripts matched a Trembl plant entry
Blastp, 1e-4 cutoff - 95% of proteins matched a Trembl plant entry
SSR Pipeline
Excel file with statistics, SSR motifs and primers (84 predicted high quality markers)

Read Statistics

Raw data may be downloaded from NCBI SRA, linked below.

454 Data

Library DescriptionLibrary CodePlatform454 Reads454 Bases
White Oak above ground tissuesWOA454 GS FLX131,63030.7
White Oak below ground tissuesWOB454 GS FLX119,38521.2M
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