Carrot Genome Assembly DH1 v3.0 Regulatory Gene Annotation

Resource Type:

Analysis

Name:

Description:

PlantTFcat, a reference plant transcription factor and transcriptional regulator categorization tool, was used to predict the transcription factors and regulatory genes in v3 gene models as well as the DCARv2 genes for comparison purposes. The data from this analysis is presented in supplementary table S17 in the carrot genome publication.

File:


File	Type
DCARv3 Regulatory Gene Annotation	GFF3

Publication:

Dai X, Sinharoy S, Udvardi M, Zhao PX. PlantTFcat: an online plant transcription factor and transcriptional regulator categorization and analysis tool.. BMC bioinformatics. 2013 Nov 12; 14:321.
Coe K, Bostan H, Rolling W, Turner-Hissong S, Macko-Podgórni A, Senalik D, Liu S, Seth R, Curaba J, Mengist MF, Grzebelus D, Van Deynze A, Dawson J, Ellison S, Simon P, Iorizzo M. Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots.. Nature plants. 2023 Oct; 9(10):1643-1658.

Relationship:

There is 1 relationship.
Relationships
The analysis, Carrot Genome Assembly DH1 v3.0 Regulatory Gene Annotation, is a part of analysis, Carrot Genome Assembly DH1 v3.0.

Program, Pipeline, Workflow or Method Name:

PlantTFcat

Program Version:

2.0

Date Performed:

Friday, October 7, 2022 - 00:00

Data Source:

Source Name: : Carrot Genome Assembly DH1 v3.0

Organism:


Name	Common Name	Comment
Daucus carota subsp. sativus	Carrot	For a general overview of carrot, see the Carrot Facts Page

Biomaterial:


Name	Description
SAMN03216637	This biosample is also known by its germplasm accession of DH1, please see this record for more details.

Project:


Name	Description
Improved Hybrid de novo Genome Assembly, Gene Prediction and Annotation of Carrot	The project goals are to improve the assembly of the genome of cultivated carrot, and improve gene predictions using this improved assembly.