Lunardon et al. 2020

Genome and annotations summary

Version v5.1 of Elaeis guineensis cv. Jacq. var. pisifera from The Genomsawit Website

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

oil_palm_all_reference_set

89,274,352

11,954,861

none

mixed

refset1

merge of 7 libraries - reference set 1

Invidiual alignments (7)

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
SRR3042542	12,660,056	2,220,807	SRA	0	fruit	Jacg	wt	A	1	fruit (30-60 days after pollination) -- control conditions
SRR3042544	11,224,439	1,957,483	SRA	0	fruit	Jacg	wt	B	1	fruit (60-100 days after pollination) -- control conditions
SRR3042545	14,210,137	1,143,655	SRA	0	fruit	Jacg	wt	C	1	fruit (100-120 days after pollination) -- control conditions
SRR3042547	11,957,732	835,081	SRA	0	fruit	Jacg	wt	D	1	fruit (120-140 days after pollination) -- control conditions
SRR3042548	13,427,220	979,677	SRA	0	fruit	Jacg	wt	E	1	fruit (140-160 days after pollination) -- control conditions
SRR5189964	12,890,487	2,395,501	SRA	0	female inflorescence	unknown	wt	F	1	female inflorescence (+6 developing stage) -- control conditions
SRR5189967	12,904,281	2,422,657	SRA	0	female inflorescence	unknown	wt	G	1	female inflorescence (+15 developing stage) -- control conditions

	Ho_et_al_2017	ShortStack
MIRNA	8	49
nearMIRNA	4	50
siRNA20	3	33
siRNA21	25	1,111
siRNA22	4	55
siRNA23	3	32
siRNA24	9	46,864
OtherRNA	37	980
NotExpressed	51	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Elaeis guineensis (African Oil Palm) genome build 5.1 (egu-b5.1)

Go to genome browser

Download genome assembly FASTA file

BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (7)