MaizeGDB is a community-oriented, long-term, federally funded
informatics service to researchers focused on the crop plant and
model organism Zea mays.
MaizeGDB is a founding member of
AgBioData,
a consortuim of agriculture-related online resources which is
committed to making agriculture-related research data FAIR.
GCV: A web-app that visualizes genomic context data in a single, federated interface by using functional annotations as a unit of search and comparison.
Ning Yang, Jie Liu, Qiang Gao, Songtao Gui, Lu Chen, Linfeng Yang, Juan Huang, Tianquan Deng, Jingyun Luo, Lijuan He, Yuebin Wang, Pengwei Xu, Yong Peng, Zhuoxing Shi, Liu Lan, Zhiyun Ma, Xin Yang, Qianqian Zhang, Mingzhou Bai, San Li, Wenqiang Li
Publication status
published
Project reference
Genome assembly of a tropical maize inbred line provides insights into structural variation and crop improvement.
Ning Yang, Jie Liu, Qiang Gao, Songtao Gui, Lu Chen, Linfeng Yang, Juan Huang, Tianquan Deng, Jingyun Luo, Lijuan He, Yuebin Wang, Pengwei Xu, Yong Peng, Zhuoxing Shi, Liu Lan, Zhiyun Ma, Xin Yang, Qianqian Zhang, Mingzhou Bai, San Li, Wenqiang Li, Lei Liu, David Jackson & Jianbing Yan
PMID DOI
Sequencing technologies: PacBio Sequencing method: SEQUEL II Genome coverage: 84X
Assembly description
Assembly methods: FALCON
Finishing strategy
complete genome
Assembly statistics
Scaff num
708
Longest scaff
301,303,159 bp
N50 scaff length
73,237,962 bp
Longest contig
56,183,869 bp
N50 contig length
15,776,512 bp
Total number of scaffolds in assembly.
Longest scaffold in assembly.
The length of scaffold which takes the sum length (summing from longest to shortest scaffold) past 50% of the total assembly size.
The longest contig.
The length of contig which takes the sum length (summing from longest to shortest contig) past 50% of the total assembly size.
A contig is a contiguous consensus sequence that is
derived from a collection of overlapping reads.
A scaffold is set of a ordered and orientated contigs
that are linked to one another by mate pairs of sequencing reads.
Annotation
Annotation Identifier
Zm00015a.1
Annotation Date
2018-11-01
Is current
yes
Annotation Method
MAKER-P
Metadata
Browser
Genome browser is not available for assembly Zm-SK-REFERENCE-YAN-1.0
