Lunardon et al. 2020

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
GSM506621	4,360,711	619,694	GEO	0	panicle	Bd21	wt	A	1	panicle (6-weeks-old plants) - control conditions
GSM1266841	4,482,330	637,018	GEO	0	leaf	Bd21	wt	B	1	leaf (6-weeks-old plants - first and second leaves - top of the blades - not including the leaf sheath) - control conditions
SRR1033810	4,427,933	508,904	SRA	0	leaf	Bd21	wt	B	1	leaf (6-weeks-old plants - first and second leaves - top of the blades - not including the leaf sheath) - control conditions
GSM1266843	3,600,059	401,580	GEO	0	stem	Bd21	wt	C	1	stem (6-weeks-old plants - just above the first top node to just below the second node - including both nodes as well as the leaf sheath of the second leaf) - control conditions
GSM1266844	2,765,539	767,726	GEO	0	leaf and stem	Bd21	wt	D	1	leaf and stem (6-weeks-old plants - first and second leaves - top of the blades - not including the leaf sheath; just above the first top node to just below the second node - including both nodes as well as the leaf sheath of the second leaf) - contr
GSM1266845	2,033,182	357,810	GEO	0	shoot	Bd21	wt	E	1	shoot (3-weeks-old plants) - control conditions
SRR1033809	5,737,589	843,306	SRA	0	root	Bd21	wt	F	1	root (3-weeks-old plants) - control conditions
SRR1033811	7,140,692	621,113	SRA	0	shoot	Bd21	wt	G	1	shoot (3-week-old plants) - salt stress
SRR1033812	7,201,011	600,025	SRA	0	shoot	Bd21	wt	H	1	shoot (3-week-old plants) - heat stress
SRR1033813	7,043,697	702,963	SRA	0	shoot	Bd21	wt	I	1	shoot (3-week-old plants) - submergence stress
SRR1033814	9,732,384	1,070,527	SRA	0	shoot	Bd21	wt	J	1	shoot (3-week-old plants) - control conditions
SRR1033815	10,282,712	957,367	SRA	0	shoot	Bd21	wt	K	1	shoot (3-week-old plants) - phosphate-starvation stress
SRR522511	17,403,120	1,266,692	SRA	0	leaf	Bd21	wt	L	1	leaf (third leaf expansion zone 2-6mm) - control conditions
SRR522512	22,351,286	1,773,644	SRA	0	leaf	Bd21	wt	L	1	leaf (third leaf expansion zone 2-6mm) - control conditions
SRR522513	20,818,040	1,269,175	SRA	0	leaf	Bd21	wt	M	1	leaf (third leaf expansion zone 2-6mm) - drought stress
SRR522514	23,020,075	1,296,240	SRA	0	leaf	Bd21	wt	M	1	leaf (third leaf expansion zone 2-6mm) - drought stress
SRR522515	21,974,830	1,544,665	SRA	0	leaf	Bd21	wt	N	1	leaf (third leaf division zone first 2 mm from the leaf base) - control conditions
SRR522516	20,401,652	1,184,736	SRA	0	leaf	Bd21	wt	N	1	leaf (third leaf division zone first 2 mm from the leaf base) - control conditions
SRR522517	14,139,802	891,750	SRA	0	leaf	Bd21	wt	O	1	leaf (third leaf division zone first 2 mm from the leaf base) - drought stress
SRR522518	22,810,737	1,320,502	SRA	0	leaf	Bd21	wt	O	1	leaf (third leaf division zone first 2 mm from the leaf base) - drought stress
SRR1174000	5,937,863	722,903	SRA	0	leaf	Bd21	wt	P	1	leaf - control conditions
SRR1174001	3,727,851	345,918	SRA	0	leaf	Bd21	wt	Q	1	leaf - salt stress for 48h
SRR1174002	9,740,989	689,452	SRA	0	leaf	Bd21	wt	R	1	leaf - cold stress for 6h
SRR1174003	9,045,684	659,357	SRA	0	leaf	Bd21	wt	S	1	leaf - cold stress for 24h
SRR1174004	9,176,226	819,489	SRA	0	leaf	Bd21	wt	T	1	leaf - heat stress by air incubation for 1h
SRR1174005	10,514,708	786,146	SRA	0	leaf	Bd21	wt	U	1	leaf - heat stress by air incubation for 3h
SRR1174006	7,293,681	653,526	SRA	0	leaf	Bd21	wt	V	1	leaf - heat stress by water immersion for 1h
SRR1174007	2,660,644	259,212	SRA	0	leaf	Bd21	wt	W	1	leaf - heat stress by water immersion for 3h
SRR3114501	11,311,015	7,572,298	SRA	0	seedling	Bd21	wt	X	1	seedling (three leaves stage) - treated with 20 mM H2O2 for 6 h in plastic containers and collected at 2 - 4 - or 6 h mixed together
SRR3114502	10,736,209	7,065,871	SRA	0	seedling	Bd21	wt	Y	1	seedling (three leaves stage) - control conditions

	miRBase21-BestBlastHit	Bertolini_et_al_2013	ShortStack
MIRNA	118	0	83
nearMIRNA	24	0	113
siRNA20	2	0	16
siRNA21	55	4	425
siRNA22	3	0	30
siRNA23	0	0	22
siRNA24	98	0	59,227
OtherRNA	21	0	3,938
NotExpressed	1	0	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Brachypodium distachyon (Stiff brome) genome build 1.0 (bdi-b1.0)

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Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (30)