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seqDownload
Help
seqDownload: a convenient tool to download genomic sequences containing given markers or genes from reference genomes.
Step1 - select the reference genome
The reference genome:
Oryza sativa japonica (Nipponbare, IRGSP1.0)
Oryza sativa japonica (Nipponbare, MSU7.0)
Oryza sativa Indica (93-11, ASM465v1)
Oryza sativa indica (MH63RS3)
Oryza sativa indica (ZS97RS3)
Oryza sativa indica (MH63)
Oryza sativa indica (ZS97)
Oryza sativa indica (Shuhui498, R498)
Oryza sativa japonica (Zhonghua 11, ZH11, RiceRC)
Oryza sativa japonica (Kongyu131, KY131, RiceRC)
Oryza sativa japonica (02428, RiceRC)
Arabidopsis thaliana (TAIR10)
Arabidopsis lyrata (v.1.0)
Ananas comosus v3 (Pineapple)
Apple (GDDH13 Version 1.1)
Brachypodium distachyon (v1.0)
Brassica napus (Genoscope, v5)
Brassica rapa (IVFCAASv1)
Brassica oleracea var. oleracea (NCBI)
broccoli (06-9-28)
Camelina sativa (false flax, NCBI)
Cyanidioschyzon merolae (ASM9120v1)
Cucumber (ChineseLong v2, cucurbitgenomics)
Cucurbita moschata (Rifu), CuGenDB v1
Glycine max (v1.0)
Gossypium hirsutum (v1.1, Upland cotton, NBI-AD1)
Hordeum vulgare (ASM32608v1)
Kiwifruit (KIR)
Dimocarpus longan
Medicago truncatula (MedtrA17_4.0)
Musa acuminata (MA1)
Mguttatus_256_v2.0, Mimubase
Morus notabilis (NCBI)
Solanum tuberosum (SolTub_3.0)
Solanum tuberosum (Potato, A6-26)
Populus trichocarpa (JGI2.0)
Prunus persica (Prupe1_0)
Prunus persica V2 (Prupe V2, GDR)
Poplar_84k (poplar_84k_genome, CNSA)
Setaria italica (JGIv2.0)
Solanum lycopersicum (SL2.50)
Sorghum bicolor (Sorbi1)
Theobroma cacao
Vitis vinifera (IGGP_12x)
Zea mays (AGPv4)
Zea mays (B73_v5)
Zoysia japonica (Zoysia Genome Database, r1.1)
Zoysia matrella (Zoysia Genome Database, r1.1)
Zoysia pacifica (Zoysia Genome Database, r1.1)
Human (GRCh38.p10)
Mouse (GRCm38.p5)
Zebrafish (GRCz10)
Drosophila melanogaster (FlyBase; Ensemble BDGP6)
Caenorhabditis elegans (WormBase; Ensembl WBcel235)
Arabidopsis thaliana mitochondrion (TAIR10)
Oryza sativa mitochondrion (Nipponbare)
Zea mays mitochondrion (B73v2)
Human mitochondrion (GRCh38)
Mouse mitochondrion (GRCm38)
Zebrafish mitochondrion (GRCz10)
Arabidopsis thaliana chloroplast (TAIR10)
Oryza sativa chloroplast (Nipponbare)
Zea mays chloroplast (B73v2)
* If the reference genome sequence is not available, you can select a close relative species.
Step2 - input a gene locus, or a marker sequence, or sequence position, or a pair of primer sequences
Please input your gene locus ID:
eg:
Os01g0131300
or LOC_Os01g04010
Or
enter your marker sequence
(=>35 bp)
.
example
Or
enter position.
example
Or
input your primer sequence:
example
Forward primer:
* (=>17 nt)
Reverse primer:
* (=>17 nt)
Step3 - flanking sequence setting
Set the upstream and downstream length
5' flanking sequence (
upstream
):
bp * (0--200000 bp)
3' flanking sequence (
downstream
):
bp * (0--200000 bp)
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