Lunardon et al. 2020

Genome and annotations summary

Version v1 of Citrus clementina cv. Clemenules 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

clementine_all_reference_set

40,516,366

4,630,729

none

ovule

Nour

refset1

merge of 4 libraries - reference set 1

Invidiual alignments (4)

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
SRR2722829	10,667,893	1,216,652	SRA	0	ovule	Nour	wt	A	1	ovule (3 days after flowering -- before nucellar embryo initiation stage -- hand-pollinated at anthesis with the pollen of Poncirus trifoliata) -- control conditions
SRR2722830	8,891,457	884,496	SRA	0	ovule	Nour	wt	A	1	ovule (3 days after flowering -- before nucellar embryo initiation stage -- hand-pollinated at anthesis with the pollen of Poncirus trifoliata) -- control conditions
SRR2722831	11,743,061	1,495,600	SRA	0	ovule	Nour	wt	B	1	ovule (7 days after flowering -- at nucellar embryo initiation stage -- hand-pollinated at anthesis with the pollen of Poncirus trifoliata) -- control conditions
SRX1353676	9,213,955	1,033,981	SRA	0	ovule	Nour	wt	B	1	ovule (7 days after flowering -- at nucellar embryo initiation stage -- hand-pollinated at anthesis with the pollen of Poncirus trifoliata) -- control conditions

	miRBase21-BestBlastHit	ShortStack
MIRNA	4	50
nearMIRNA	0	68
siRNA20	0	10
siRNA21	1	370
siRNA22	0	147
siRNA23	0	32
siRNA24	0	12,190
OtherRNA	0	1,368
NotExpressed	0	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Citrus clementina (Clementine) genome build 1 (ccl-b1)

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Download genome assembly FASTA file

BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (4)