Sequence and annotation data

You can download DNA, cDNA, protein and ncRNA sequence datas from "Ensemble Genomes 46" or "JGI v3.1.1".


Annotation data
Full-length cDNA Sorghum_cDNA.fasta.gz
rRNA Sorghum_rRNA.fa


Downloads fpkm data




Downloads cDNA sequence data




Published RNA-Seq data
Referance Difinition Platform Sample name NCBI link
Dugas DV, et al.
BMC Genomics.
2011
RNA-Seq of Sorghum bicolor 9d seedlings in response to osmotic stress and abscisic acid. Illumina Genome Analyzer IIx ABA Root
PEG Root
Control Root
NaOH Root
ABA Shoot
PEG Shoot
Control Shoot
NaOH Shoot
SRP007361(NCBI)
Davidson RM, et al.
Plant Journal.
2012
Sorghum bicolor, BTx623 RNA-Seq - Conserved Poaceae Specific Genes Project. Illumina Genome Analyzer IIx 20 Day Leaves (SBB_AA)
Emerging Inflorescence
Seed 5 Days After Pollination
Early Inflorescence
Pistil
Embryo 25 Days After Pollination
Endosperm 25 Days After Pollination
Anther
Seed 10 Days After Pollination
20 Day Leaves (SBB_CA)
SRP008469(NCBI)
Mizuno H, et al.
BMC Plant Biol.
2012
mRNA-seq for Sorghum bicolor (L.) Moench BTx623 infected by Bipolaris sorghicola. Illumina Genome Analyzer IIx Mock
Infected by Bipolaris sorghicola
DRA000387(NCBI)
Yazawa T, et al.
PLoS One.
2013
Simultaneous transcriptome analysis of sorghum and Bipolaris sorghicola by using RNA-seq in combination with de novo transcriptome. Illumina HiSeq 2000 Control 0h
Control 12h
Infected 12h
Control 24h
Infected 24h
DRA000948(NCBI)
Gelli M, et al.
BMC Genomics.
2014
Sorghum nitrogen stress tolerance. Illumina Genome Analyzer IIx CK60
BTX623
San chi San
China17
KS78
high-NUE bulk
low-NUE bulk
SRP036640(NCBI)
Mizuno H, et al.
BMC Res Notes.
2014


Mizuno H, et al.
Front Plant Sci.
2016
Color variation in sorghum is controlled by the expression level of the F3'H gene. Illumina Genome Analyzer II Control(Nakei, M36001
#3, #62, #96, #127)
Cut-stress(Nakei, M36001
#3, #62, #96, #127)
DRA001265(NCBI)
Shimada S, et al.
DNA Res.
2015


Makita Y, et al.
Plant Cell Physiol.
2015
Tissue specific expression data in Sorghum bicolor BTx623. Illumina HiSeq 2000 Seed
Stem
Panicle
DRR030757(NCBI)
DRA003104(NCBI)
Mizino H, et al.
BMC Plant Biol.
2018
Sugar RNA-seq. Illumina HiSeq 2000 Intact
Lodged
DRA001269(NCBI)
McCormick RF, et al.
Plant J.
2018
Gene expression analysis of Sorghum bicolor BTx623. Illumina Hiseq 2500 Internode(g upper, growing, mature)
Leaf(blade, flag internode, sheath growing,
lower, lower growing, lower whorl,
upper, upper growing, upper whorl)
Panicle(control, lower, upper)
Peduncle
Root(control, bottom, middle, top)
Seed(dry, imbibed)
Shoots
Stem(1cm, 2mm, mid internode)
SRA558272(NCBI)
SRA558514(NCBI)
SRA558539(NCBI)
Lu Z, et al.
Nat Plants.
2019
The prevalence, evolution and chromatin signatures of plant regulatory elements. Illumina NextSeq 500 ATAC-seq Leaf
ChIP-seq : H3
ChIP-seq : H3K27me3
ChIP-seq : H3K36me3
ChIP-seq : H3K56ac
ChIP-seq : H3K4me3
ChIP-seq : H3K4me1
ChIP-seq : H2A.Z
RNA-seq
SRP188687(NCBI)

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