1. 1. 基因组 genome
   2. 转录本 transcripts
   3. 蛋白质 protein
   4. 编码DNA序列 CDS
   5. 基因组注释 GFF
   6. BED 文件

 

更新时间

 

注意事项

1. 文件名是以缩写来代替的，缩写是为方便而人为拟定的，没有实际意义；
2.  “缩写”不是学名的缩写，“缩写”不是学名的缩写！没有特定的规则，以下表为准；
3.  取用之前确认一下数据的版本；
4. 用软链接获取数据，不推荐直接复制到自己目录下；
5. less 命令可以查看 gz 文件，无需解压
6. 不要对原数据做任何更改，包括改变文件名

 

 

基因组 genome

/B313/HUANG/FGDD/raw_data/all_33/genome_fasta

转录本 transcripts

/B313/HUANG/FGDD/raw_data/all_33/cds_raw

(虽然目录名是cds_raw，但是这里并不是cds，不是cds！是transcripts！千万不要改名字，会导致大量程序失效！)

基因组注视 GFF 文件

/B313/HUANG/FGDD/raw_data/all_33/gff_raw

蛋白质

/B313/HUANG/FGDD/raw_data/all_33/prot

DNA 编码序列 CDS

cds文件分了两处存放：

/B313/HUANG/FGDD/edited_cds/from_gffread

/B313/HUANG/FGDD/edited_cds/following_added

(这里的cds文件不包含线粒体基因)

BED 文件

/B313/HUANG/FGDD/bed

 

物种信息

学名 俗名 缩写 来源

Danio rerio zebrafish Dr https://www.ncbi.nlm.nih.gov/genome/?term=zebrafish

Cyprinus carpio common_carp Cc https://www.ncbi.nlm.nih.gov/genome/?term=carp

Ictalurus punctatus channel_catfish Ip https://www.ncbi.nlm.nih.gov/genome/198

Oryzias latipes Japanese_medaka Ol https://www.ncbi.nlm.nih.gov/genome/?term=medaka

Lepisosteus oculatus spotted_gar Lo https://www.ncbi.nlm.nih.gov/genome/?term=gar

Salmo trutta river_trout St https://www.ncbi.nlm.nih.gov/genome/31807

Oncorhynchus tshawytscha Chinook_salmon Ot https://www.ncbi.nlm.nih.gov/genome/13133

Oncorhynchus mykiss rainbow_trout Om https://www.ncbi.nlm.nih.gov/genome/196

Salmo salar Atlantic_salmon Ss https://www.ncbi.nlm.nih.gov/genome/369

Astyanax mexicanus Mexican_tetra Am https://www.ncbi.nlm.nih.gov/genome/13073

Scleropages formosus Asian_bonytongue Sf https://www.ncbi.nlm.nih.gov/genome/7635

Archocentrus centrarchus flier_cichlid Ac https://www.ncbi.nlm.nih.gov/genome/83002

Cottoperca gobio Cottoperca_gobio Cg https://www.ncbi.nlm.nih.gov/genome/76087

Echeneis naucrates live_sharksucker En https://www.ncbi.nlm.nih.gov/genome/22910

Larimichthys crocea large_yellow_croaker Lc https://www.ncbi.nlm.nih.gov/genome/12197

Myripristis murdjan pinecone_soldierfish Mm https://www.ncbi.nlm.nih.gov/genome/82498

Perca flavescens yellow_perch Pf https://www.ncbi.nlm.nih.gov/genome/15707

Xiphophorus couchianus Monterrey_platyfish Xc https://www.ncbi.nlm.nih.gov/genome/16825

Xiphophorus maculatus southern_platyfish Xm https://www.ncbi.nlm.nih.gov/genome/10764

Gadus morhua Atlantic_cod Gm https://www.ncbi.nlm.nih.gov/genome/2661

Gouania willdenowi blunt-snouted_clingfish Gw https://www.ncbi.nlm.nih.gov/genome/76090

Sphaeramia orbicularis orbiculate_cardinalfish So https://www.ncbi.nlm.nih.gov/genome/82499

Cynoglossus semilaevis tongue_sole Cs https://www.ncbi.nlm.nih.gov/genome/11788

Parambassis ranga Indian_glassy_fish Pr https://www.ncbi.nlm.nih.gov/genome/76088

Takifugu rubripes torafugu Tr https://www.ncbi.nlm.nih.gov/genome/63

Betta splendens Siamese_fighting_fish Bs https://www.ncbi.nlm.nih.gov/genome/36335

Denticeps clupeoides denticle_herring Dc https://www.ncbi.nlm.nih.gov/genome/7889

Nothobranchius furzeri turquoise_killifish Nf https://www.ncbi.nlm.nih.gov/genome/2642

Erpetoichthys calabaricus reedfish Ec https://www.ncbi.nlm.nih.gov/genome/7312

Sparus aurata gilthead_seabream Sg https://www.ncbi.nlm.nih.gov/genome/11609

Astatotilapia calliptera eastern_happy Ah https://www.ncbi.nlm.nih.gov/genome/15018

Salarias fasciatus jewelled_blenny Sj https://www.ncbi.nlm.nih.gov/genome/7248

Chanos chanos milkfish Cm https://www.ncbi.nlm.nih.gov/genome/7282

Pelteobagrus fulvidraco yellow_catfish Py http://gigadb.org/dataset/100506

Oreochromis niloticus Nile_tilapia On https://www.ncbi.nlm.nih.gov/genome/197

Maylandia zebra zebra_mbuna Mz https://www.ncbi.nlm.nih.gov/genome/2640

Poecilia reticulata guppy Pg https://www.ncbi.nlm.nih.gov/genome/23338

Oncorhynchus nerka sockeye_salmon Os https://www.ncbi.nlm.nih.gov/genome/13174

Oncorhynchus kisutch coho_salmon Ok https://www.ncbi.nlm.nih.gov/genome/13127

Carassius auratus goldfish Ca https://www.ncbi.nlm.nih.gov/genome/10773

Esox lucius northern_pike El https://www.ncbi.nlm.nih.gov/genome/22932