Carrot Genome Assembly DH1 v3.0 Repetitive DNA Annotation

Name

Type

Analysis

Description

De novo identification of carrot repetitive DNA was carried out with RepeatModeler v.2.0.1. Annotation of the consensus sequences was performed using a curated database of carrot LTR-RTs, Helitrons and MITE, carrot satellite repeats, dicot plant repeats from RepBase (v.23.05) and DANTE. Masking was performed using RepeatMasker.

Software Name

RepeatModeler + RepeatMasker

Software Version

v.2.0.1 + v.4.1.0

Data Source Name

Carrot Genome Assembly DH1 v3.0

Relationship

The Analysis Carrot Genome Assembly DH1 v3.0 Repetitive DNA Annotation is a part of Genome Assembly Carrot Genome Assembly DH1 v3.0

Publication

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.

Project

Improved Hybrid de novo Genome Assembly, Gene Prediction and Annotation of Carrot

Biological Sample

SAMN03216637

File

File	Type
DCARv3 Repetitive DNA Annotation	GFF3

Organism

Daucus carota subsp. sativus