Lunardon et al. 2020

Genome and annotations summary

Version v3.0 of Sorghum bicolor cv. BTx623 from Phytozome

Small RNA Loci

Click links below to show sub-sets of annotations

Small RNA-seq data

Reference Set

accession

aligned reads

unaligned reads

source db

is refset? Alignments that are reference sets (value of 1) are mergers of other component libraries used to compile master small RNA annotations for a species.

tissue

ecotype / cultivar

genotype

replicate id Alignments that are biological replicates have the same replicate ids

refset id If set, the alignment is part of the indicated reference set

description

sorghum_all_reference_set

104,515,306

30,029,015

none

mixed

refset1

merge of 11 libraries - reference set 1

Invidiual alignments (11)

accession	aligned reads	unaligned reads	source db	is refset? Alignments that are reference sets (value of 1) are mergers of other component libraries used to compile master small RNA annotations for a species.	tissue	ecotype / cultivar	genotype	replicate id Alignments that are biological replicates have the same replicate ids	refset id If set, the alignment is part of the indicated reference set	description
ERR266127	8,147,355	4,020,505	SRA	0	leaf	C43	wt	A	1	leaf (30-days-old plants - fully opened uppermost leaves) - drought stress
ERR266128	7,747,562	3,855,760	SRA	0	leaf	M35-1	wt	B	1	leaf (30-days-old plants - fully opened uppermost leaves) - control conditions
ERR266129	7,827,325	2,982,771	SRA	0	leaf	M35-1	wt	C	1	leaf (30-days-old plants - fully opened uppermost leaves) - drought stress
ERR266130	6,753,961	2,224,368	SRA	0	leaf	C43	wt	D	1	leaf (30-days-old plants - fully opened uppermost leaves) - control conditions
GSM803128	3,647,265	2,332,731	GEO	0	leaf	BTx623	wt	E	1	leaf (3-weeks-old plants) - control conditions
GSM803129	3,385,679	1,240,858	GEO	0	inflorescence	BTx623	wt	F	1	flower (~9-weeks-old-plants) - control conditions
GSM803130	2,921,423	1,171,449	GEO	0	panicle in early grain fill	BTx623	wt	G	1	young panicle in early grain fill
SRR358899	16,178,902	2,878,502	SRA	0	seedling	BTx623	wt	H	1	seedling - control conditions
SRR358900	16,211,695	3,535,475	SRA	0	seedling	BTx623	wt	I	1	seedling - drought stress
SRR358901	15,857,529	2,762,566	SRA	0	seedling	BTx623	wt	J	1	seedling - cold stress
SRR358902	15,836,610	3,024,030	SRA	0	seedling	BTx623	wt	K	1	seedling - salt stress

	miRBase21-BestBlastHit	Katiyar_et_al_2015	ShortStack
MIRNA	94	0	78
nearMIRNA	24	0	65
siRNA20	4	0	36
siRNA21	30	2	894
siRNA22	2	0	100
siRNA23	4	0	9
siRNA24	39	0	21,013
OtherRNA	5	0	2,463
NotExpressed	3	0	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Sorghum bicolor (Sorghum) genome build 3.0 (sbi-b3.0)

Go to genome browser

Download genome assembly FASTA file

BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (11)