Lunardon et al. 2020

Version v2 of Cucumis sativus cv. Chinese Long 9930 from The Cucurbit Genomics Database

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
SRR1514098	15,884,191	8,571,259	SRA	0	leaf	unknown	wt	A	1	leaf (6-weeks-old plants) -- collected 0 -- 0.5 -- 1 -- 3 and 7 days after treatment with mock solution
SRR3156471	3,623,871	445,991	SRA	0	shoot apex	9930	wt	AA	1	shoot apex (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156472	3,514,380	388,100	SRA	0	shoot apex	9930	wt	AA	1	shoot apex (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156473	7,480,410	736,939	SRA	0	shoot apex	9930	wt	AA	1	shoot apex (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156474	4,414,539	433,644	SRA	0	shoot apex	9930	wt	AB	1	shoot apex (2-weeks-old plants) -- control conditions
SRR3156475	6,359,919	807,076	SRA	0	shoot apex	9930	wt	AB	1	shoot apex (2-weeks-old plants) -- control conditions
SRR3156476	8,233,070	1,072,819	SRA	0	shoot apex	9930	wt	AB	1	shoot apex (2-weeks-old plants) -- control conditions
SRX1656937	71,959,085	16,371,696	SRA	0	leaf	GY14	wt	AC	1	leaf -- control conditions
SRR1514099	13,647,166	7,735,176	SRA	0	leaf	unknown	wt	B	1	leaf (6-weeks-old plants) -- collected 0 -- 0.5 -- 1 -- 3 and 7 days after treatment with Pseudoperonospora cubensis
SRR2045586	7,631,133	4,811,714	SRA	0	leaf	Vlaspik	wt	C	1	leaf -- 1 day post inoculation with Pseudoperonospora cubensis
SRR2045587	4,863,441	3,595,863	SRA	0	leaf	Vlaspik	wt	C	1	leaf -- 1 day post inoculation with Pseudoperonospora cubensis
SRR2045694	5,951,664	4,912,050	SRA	0	leaf	Vlaspik	wt	D	1	leaf -- 2 days post inoculation with Pseudoperonospora cubensis
SRR2045714	4,887,673	1,877,047	SRA	0	leaf	Vlaspik	wt	D	1	leaf -- 2 days post inoculation with Pseudoperonospora cubensis
SRR2045729	6,209,947	4,607,959	SRA	0	leaf	Vlaspik	wt	E	1	leaf -- 3 days post inoculation with Pseudoperonospora cubensis
SRR2045731	8,012,941	2,890,108	SRA	0	leaf	Vlaspik	wt	E	1	leaf -- 3 days post inoculation with Pseudoperonospora cubensis
SRR2045884	4,702,801	2,317,209	SRA	0	leaf	Vlaspik	wt	F	1	leaf -- 4 days post inoculation with Pseudoperonospora cubensis
SRR2045885	6,615,548	2,778,114	SRA	0	leaf	Vlaspik	wt	F	1	leaf -- 4 days post inoculation with Pseudoperonospora cubensis
SRR2045886	4,900,254	1,847,349	SRA	0	leaf	Vlaspik	wt	G	1	leaf -- 6 days post inoculation with Pseudoperonospora cubensis
SRR2045996	6,310,506	2,766,149	SRA	0	leaf	Vlaspik	wt	G	1	leaf -- 6 days post inoculation with Pseudoperonospora cubensis
SRR2045887	7,262,203	2,888,641	SRA	0	leaf	Vlaspik	wt	H	1	leaf -- mock-inoculated -- control conditions
SRR2045888	6,512,358	2,320,776	SRA	0	leaf	Vlaspik	wt	H	1	leaf -- mock-inoculated -- control conditions
SRR2045889	4,011,929	2,387,564	SRA	0	leaf	PI197088	wt	I	1	leaf -- 1 day post inoculation with Pseudoperonospora cubensis
SRR2045890	5,014,967	3,827,485	SRA	0	leaf	PI197088	wt	I	1	leaf -- 1 day post inoculation with Pseudoperonospora cubensis
SRR2045891	5,066,066	2,086,441	SRA	0	leaf	PI197088	wt	J	1	leaf -- 2 days post inoculation with Pseudoperonospora cubensis
SRR2045892	6,019,976	2,683,513	SRA	0	leaf	PI197088	wt	J	1	leaf -- 2 days post inoculation with Pseudoperonospora cubensis
SRR2045893	6,151,773	1,952,963	SRA	0	leaf	PI197088	wt	K	1	leaf -- 3 days post inoculation with Pseudoperonospora cubensis
SRR2045894	6,427,208	2,722,306	SRA	0	leaf	PI197088	wt	K	1	leaf -- 3 days post inoculation with Pseudoperonospora cubensis
SRR2045895	3,329,944	981,532	SRA	0	leaf	PI197088	wt	L	1	leaf -- 4 days post inoculation with Pseudoperonospora cubensis
SRR2045896	6,613,050	2,857,698	SRA	0	leaf	PI197088	wt	L	1	leaf -- 4 days post inoculation with Pseudoperonospora cubensis
SRR2045897	5,700,422	2,083,431	SRA	0	leaf	PI197088	wt	M	1	leaf -- 6 days post inoculation with Pseudoperonospora cubensis
SRR2045898	6,656,583	3,144,641	SRA	0	leaf	PI197088	wt	M	1	leaf -- 6 days post inoculation with Pseudoperonospora cubensis
SRR2045900	3,024,090	1,092,906	SRA	0	leaf	PI197088	wt	N	1	leaf -- mock-inoculated -- control conditions
SRR2045901	5,710,146	2,262,887	SRA	0	leaf	PI197088	wt	N	1	leaf -- mock-inoculated -- control conditions
SRR3156436	3,881,752	447,255	SRA	0	internode vascular tissue	9930	wt	O	1	internode vascular tissue (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156437	8,107,442	1,025,925	SRA	0	internode vascular tissue	9930	wt	O	1	internode vascular tissue (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156435	3,602,578	326,409	SRA	0	internode vascular tissue	9930	wt	O	1	internode vascular tissue (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156438	2,596,367	256,207	SRA	0	internode vascular tissue	9930	wt	P	1	internode vascular tissue (2-weeks-old plants) -- control conditions
SRR3156439	3,502,572	415,111	SRA	0	internode vascular tissue	9930	wt	P	1	internode vascular tissue (2-weeks-old plants) -- control conditions
SRR3156440	10,081,599	1,033,175	SRA	0	internode vascular tissue	9930	wt	P	1	internode vascular tissue (2-weeks-old plants) -- control conditions
SRR3156441	3,734,888	1,101,875	SRA	0	lamina	9930	wt	Q	1	lamina (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156442	5,437,267	1,084,445	SRA	0	lamina	9930	wt	Q	1	lamina (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156443	9,051,844	3,624,329	SRA	0	lamina	9930	wt	Q	1	lamina (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156444	4,539,600	1,173,181	SRA	0	lamina	9930	wt	R	1	lamina (2-weeks-old plants) -- control conditions
SRR3156445	2,889,282	676,806	SRA	0	lamina	9930	wt	R	1	lamina (2-weeks-old plants) -- control conditions
SRR3156446	8,627,426	2,677,557	SRA	0	lamina	9930	wt	R	1	lamina (2-weeks-old plants) -- control conditions
SRR3156447	4,014,893	616,300	SRA	0	major vein	9930	wt	S	1	major vein (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156448	10,512,432	1,243,045	SRA	0	major vein	9930	wt	S	1	major vein (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156449	14,924,098	2,059,260	SRA	0	major vein	9930	wt	S	1	major vein (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156450	4,588,433	788,406	SRA	0	major vein	9930	wt	T	1	major vein (2-weeks-old plants) -- control conditions
SRR3156451	3,110,730	487,527	SRA	0	major vein	9930	wt	T	1	major vein (2-weeks-old plants) -- control conditions
SRR3156452	10,365,211	1,901,125	SRA	0	major vein	9930	wt	T	1	major vein (2-weeks-old plants) -- control conditions
SRR3156453	4,661,549	299,649	SRA	0	pholem sap	9930	wt	U	1	pholem sap (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156454	3,862,431	241,912	SRA	0	pholem sap	9930	wt	U	1	pholem sap (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156455	9,909,174	549,060	SRA	0	pholem sap	9930	wt	U	1	pholem sap (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156456	2,359,180	145,760	SRA	0	pholem sap	9930	wt	V	1	pholem sap (2-weeks-old plants) -- control conditions
SRR3156457	5,549,316	284,734	SRA	0	pholem sap	9930	wt	V	1	pholem sap (2-weeks-old plants) -- control conditions
SRR3156458	8,656,886	474,837	SRA	0	pholem sap	9930	wt	V	1	pholem sap (2-weeks-old plants) -- control conditions
SRR3156459	4,043,072	482,519	SRA	0	petiole vascular tissue	9930	wt	W	1	petiole vascular tissue (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156460	15,228,325	2,072,598	SRA	0	petiole vascular tissue	9930	wt	W	1	petiole vascular tissue (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156461	8,480,226	1,034,892	SRA	0	petiole vascular tissue	9930	wt	W	1	petiole vascular tissue (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156462	4,576,884	500,262	SRA	0	petiole vascular tissue	9930	wt	X	1	petiole vascular tissue (2-weeks-old plants) -- control conditions
SRR3156463	4,582,912	446,425	SRA	0	petiole vascular tissue	9930	wt	X	1	petiole vascular tissue (2-weeks-old plants) -- control conditions
SRR3156464	10,942,758	1,231,969	SRA	0	petiole vascular tissue	9930	wt	X	1	petiole vascular tissue (2-weeks-old plants) -- control conditions
SRR3156465	3,521,769	504,791	SRA	0	root	9930	wt	Y	1	root (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156466	3,366,867	583,956	SRA	0	root	9930	wt	Y	1	root (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156467	20,163,734	3,129,119	SRA	0	root	9930	wt	Y	1	root (2-weeks-old plants) -- 12h of phosphate deficiency stress
SRR3156468	3,418,329	564,549	SRA	0	root	9930	wt	Z	1	root (2-weeks-old plants) -- control conditions
SRR3156469	2,918,680	495,759	SRA	0	root	9930	wt	Z	1	root (2-weeks-old plants) -- control conditions
SRR3156470	10,526,130	1,640,193	SRA	0	root	9930	wt	Z	1	root (2-weeks-old plants) -- control conditions

	ShortStack	Ling_et_al_2017
MIRNA	74	203
nearMIRNA	10	4
siRNA20	18	0
siRNA21	569	19
siRNA22	382	4
siRNA23	25	2
siRNA24	60,142	8
OtherRNA	9,552	42
NotExpressed	0	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Cucumis sativus (Cucumber) genome build 2 (csa-b2)

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Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (69)