Lunardon et al. 2020

Version v1.6 of Capsicum annuum cv. Criollo de Morelos 334 from The Pepper Genome Platform

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
GSM712519	3,260,408	1,247,814	GEO	0	leaf	unknown	wt	A	1	leaf (fully grown middle or upper) -- control conditions
GSM712520	3,825,639	1,222,030	GEO	0	flower	unknown	wt	B	1	flower (pre-anthesis) -- control conditions
GSM712521	4,673,657	1,818,468	GEO	0	fruit	unknown	wt	C	1	fruit (exterior tissues: endocarp -- exocarp -- mesocarp) -- control conditions
SRR3620778	66,070,872	17,818,419	SRA	0	unknown	Punjab lal	wt	D	1	tissue not known -- Ca-C1 control
SRR3620779	26,966,410	15,355,827	SRA	0	unknown	Punjab lal	wt	E	1	tissue not known -- Ca-T1 anthracnose pathogen Colletotrichum capsici
SRR595046	39,344,945	16,901,118	SRA	0	flower	CM334	wt	F	1	flower -- control conditions
SRR595047	42,696,052	13,167,032	SRA	0	fruit	CM334	wt	G	1	fruit (6 days after pollination) -- control conditions
SRR595048	30,859,660	6,409,805	SRA	0	fruit	CM334	wt	H	1	fruit (16 days after pollination) -- control conditions
SRR595050	32,046,475	7,822,306	SRA	0	fruit	CM334	wt	I	1	fruit (36 days after pollination -- mature green) -- control conditions
SRR595051	35,707,727	7,185,166	SRA	0	fruit	CM334	wt	J	1	fruit (38 days after pollination) -- control conditions
SRR595052	29,498,087	5,298,377	SRA	0	fruit	CM334	wt	K	1	fruit (43 days after pollination) -- control conditions
SRR595053	39,760,083	6,718,928	SRA	0	fruit	CM334	wt	L	1	fruit (48 days after pollination) -- control conditions
SRR595054	40,552,914	22,025,696	SRA	0	leaf	CM334	wt	M	1	leaf -- control conditions
SRR595055	34,227,040	9,693,388	SRA	0	root	CM334	wt	N	1	root -- control conditions
SRR595056	33,429,167	10,592,431	SRA	0	stem	CM334	wt	O	1	stem -- control conditions
SRR616260	34,353,731	7,364,882	SRA	0	fruit	CM334	wt	P	1	fruit (25 days after pollination) -- control conditions
SRR771957	7,948,000	3,189,480	SRA	0	leaf	Zunla 1	wt	Q	1	leaf (mature leaves) -- control conditions
SRR771958	8,325,836	2,461,605	SRA	0	flower	Zunla 1	wt	R	1	flower (fully open) -- control conditions
SRR771959	8,831,690	2,007,414	SRA	0	fruit	Zunla 1	wt	S	1	fruit (mature green) -- control conditions
SRR771960	11,732,738	5,484,867	SRA	0	root	Zunla 1	wt	T	1	root (developing roots) -- control conditions
SRR771961	10,506,231	4,052,723	SRA	0	stem	Zunla 1	wt	U	1	stem (developing stem) -- control conditions

	ShortStack	Qin_et_al_2014
MIRNA	77	111
nearMIRNA	70	15
siRNA20	28	1
siRNA21	1,477	27
siRNA22	3,675	0
siRNA23	584	0
siRNA24	76,366	10
OtherRNA	4,250	16
NotExpressed	0	2

Data from Lunardon et al. (2020)

Genome and annotations summary

Capsicum annuum (Pepper) genome build 1.6 (can-b1.6)

Go to genome browser

Download genome assembly FASTA file

BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (21)