Lunardon et al. 2020

Genome and annotations summary

Version 1.0 genome from Amborella.org along with plastid and mitochondrial genomes

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

atr-b1r2

40,875,769

6,105,070

none

mixed

unknown

wild-type

refset2

merge of three WT libraries - reference set 2

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
SRR606852	21,244,471	2,156,573	SRA	0	female flower	unknown	wild-type	f_flow	1	female flower
GSM712477	3,616,907	520,167	GEO	0	leaves	unknown	wild-type	lf1	1	leaves
SRR606853	16,014,391	3,428,330	SRA	0	leaf	unknown	wild-type	lf2	1	leaf

	ShortStack	AmborellaPaper_TS33	miRBase21
MIRNA	66	67	50
nearMIRNA	188	255	10
siRNA20	47	469	2
siRNA21	1,886	2,902	6
siRNA22	285	1,206	0
siRNA23	141	933	1
siRNA24	34,887	29,459	37
OtherRNA	9,120	8,697	9
NotExpressed	0	27,020	9

Data from Lunardon et al. (2020)

Genome and annotations summary

Amborella trichopoda (Amborella) genome build 1 (atr-b1)

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BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (3)