Summary
Name
Cornus florida - Transcriptome Assembly
Resource Type
Transcriptome Assembly
Organism
Ontology Browser
View Gene Ontology browser or KEGG Ontology browser for Cornus florida
Data Source
Source Name
: de novo assembly
Date Performed
Monday, December 5, 2016 - 20:00
Number of transcripts
43158
Average Transcript Length
delete_me
Program, Pipeline, Workflow or Method Name
Newbler (Roche)
Program Version
Newbler (Roche) [30-Nov-2016]
Cross Reference
Description and Download
Description: 

Assembly Statistics

Number of Transcripts43,158
Transcript N501,206 bp
Transcript Average Length1,086 bp
Number of Proteins39,577
Protein N50265 aa
Protein Average Length231 aa

Download

Assembled sequence data:
Putative Transcripts (fasta format)
Predicted ORFs (fasta format)

Functional Annotation

BLASTx analysis against Swiss-prot protein database with an e-value cut-off of 1e-5.
File (tsv file)
BLASTx analysis against Trembl protein database, only plant entries with an e-value cut-off of 1e-5.
File (tsv file)
InterProScan searches with GO term annotation:
File (tsv file)

SSR Pipeline

Excel file with statistics, SSR motifs and primers (? high quality markers)
Fasta file of transcripts with SSR motifs

Read Statistics

Two cultivars of C. florida were used for sequencing: ‘Appalachian Spring’ and ‘Cherokee Brave’. RNA was extracted from leaf, fully expanded bract, and flower tissue. RNA was combined and sequenced to yield 580Mbp of sequence data from 1,621,644 reads.
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