Lunardon et al. 2020

Genome and annotations summary

Version v1.0 of Brassica oleracea var. capitata cv. 02-12 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

savoy_cabbage_all_reference_set

58,638,949

16,026,985

none

leaf

Balbro

refset1

merge of 3 libraries - reference set 1

Invidiual alignments (3)

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
SRR799356	19,351,393	5,517,000	SRA	0	leaf	Balbro	wt	A	1	leaf (mature leaf) -- control conditions
SRR799357	18,681,788	5,074,656	SRA	0	leaf	Balbro	wt	A	1	leaf (mature leaf) -- control conditions
SRR799358	20,605,768	5,435,329	SRA	0	leaf	Balbro	wt	A	1	leaf (mature leaf) -- control conditions

	miRBase21-BestBlastHit	ShortStack
MIRNA	2	26
nearMIRNA	3	51
siRNA20	0	60
siRNA21	4	3,113
siRNA22	0	473
siRNA23	0	1,830
siRNA24	1	15,574
OtherRNA	0	300
NotExpressed	0	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Brassica oleracea var. capitata (Cabbage) genome build 1.0 (bol-b1.0)

Go to genome browser

Download genome assembly FASTA file

BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (3)