Lunardon et al. 2020

Genome and annotations summary

Version v1.0 of Chenopodium quinoa cv. Chilean quinoa PI 614886 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

quinoa_all_reference_set

58,163,871

66,655,709

none

mixed

PI614886

refset1

merge of 10 libraries - reference set 1

Invidiual alignments (10)

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
SRR4300230	4,825,199	17,831,610	SRA	0	root	PI614886	wt	A	1	root -- control conditions
SRR4300231	3,508,861	8,662,642	SRA	0	root	PI614886	wt	A	1	root -- control conditions
SRR4300232	3,016,872	9,501,569	SRA	0	root	PI614886	wt	A	1	root -- control conditions
SRR4300233	8,628,522	3,281,635	SRA	0	shoot	PI614886	wt	B	1	shoot -- control conditions
SRR4300234	6,871,046	5,400,083	SRA	0	shoot	PI614886	wt	B	1	shoot -- control conditions
SRR4300235	6,925,749	7,193,629	SRA	0	shoot	PI614886	wt	B	1	shoot -- control conditions
SRR4300237	5,743,946	5,837,079	SRA	0	root	PI614886	wt	C	1	root -- low phosphate stress
SRR4300239	5,379,467	4,524,700	SRA	0	shoot	PI614886	wt	D	1	shoot -- low phosphate stress
SRR4300240	6,041,961	2,453,659	SRA	0	shoot	PI614886	wt	D	1	shoot -- low phosphate stress
SRR4300241	7,222,248	1,969,103	SRA	0	shoot	PI614886	wt	D	1	shoot -- low phosphate stress

	ShortStack
MIRNA	48
nearMIRNA	46
siRNA20	6
siRNA21	50
siRNA22	98
siRNA23	79
siRNA24	6,169
OtherRNA	3,021
NotExpressed	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Chenopodium quinoa (Quinoa) genome build 1.0 (cqi-b1.0)

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Download genome assembly FASTA file

BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (10)