Genome files are saved as fasta file format, include many species like human, mouse, chicken, chimpanzee and so on. Data from Emsembl and Gencode are collected. A fasta index (.fai) file is located in the same directoey.
All genome files are located in /150T/zhangqf/GenomeAnnotation/genome
| Species | Version | Source | Number of sequences | File name |
|---|---|---|---|---|
| human | hg38 | Emsebl/NCBI | 555 (chr1,chr2...chrM) | hg38.fa |
| hg19 | Emsebl/NCBI | 297 (chr1,chr2...chrM) | hg19.fa | |
| mouse | mm10 | Emsebl/NCBI | 107 (chr1,chr2...chrM) | mm10.fa |
| mm9 | Emsebl/NCBI | 211 (chr1,chr2...chrM) | mm9.fa | |
| chicken | NA | Emsebl | 23475 (1,2,3...W,Z,MT) | chicken_ensembl.fa |
| NA | NCBI | 464 (chr1,chr2...chrM,chrW,chrZ) | chicken_ncbi.fa | |
| macaque | NA | Emsebl | 284728 (1,2,3...X,Y,MT) | macaque_ensembl.fa |
| NA | NCBI | 211 (chr1,chr2...chrX,chrY,chrM) | macaque_ncbi.fa | |
| yeast | NA | Emsebl | 107 (I,II,...,Mito) | yeast_ensembl.fa |
| NA | NCBI | 17 (chrI,chrII...chrM) | yeast_ncbi.fa | |
| drosophila | NA | Emsebl | 1870 (2L,2R,...X,Y) | drosophila_ensembl.fa |
| horse | NA | Emsebl | 9637 (1,2,3...X,MT) | horse_ensembl.fa |
| cattle | NA | NCBI | 2211 (ch1,chr2...chrX,chrM) | cattle_ncbi.fa |
| dog | NA | NCBI | 3268 (chr1,chr2...chrM,chrX) | dog_ncbi.fa |
| frog | NA | NCBI | 6822 (chr1,chr2...chrM) | frog_ncbi.fa |
| rat | NA | NCBI | 955 (chr1,chr2...chrX,chrY,chrM) | rat_ncbi.fa |
| zebrafish | NA | NCBI | 955 (chr1,chr2...chrM) | zebrafish_ncbi.fa |
| bonobo | NA | NCBI | 10274 (chr1,chr2...chrX,chrM) | bonobo_ncbi.fa |
| cat | NA | NCBI | 4508 (chrA1,chrA2...chrM,chrX) | cat_ncbi.fa |
| ecoli | NA | NCBI | 1 (NC_000913.3) | ecoli.fa |
| garter snake | NA | NCBI | 7930 (NW_013657680.1,NW_013657681.1...) | garter_snake_ncbi.fa |
| green monkey | NA | NCBI | 2004 (chr1,chr2...chrX,chrY,chrM) | green_monkey_ncbi.fa |
| naked mole rat | NA | NCBI | 4228 (NW_004624730.1,NW_004624731.1...) | naked_mole_rat_ncbi.fa |
| platypus | NA | NCBI | 200154 (chr1,chr2...chrX1,chrX2,chrM) | platypus_ncbi.fa |
| sheep | NA | NCBI | 11639 (NW_011942239.1,NW_011942240.1...) | sheep_ncbi.fa |
| baboon | NA | NCBI | 63235 (chr1,chr2...chrX,chrM) | baboon_ncbi.fa |
| brown kiwi | NA | NCBI | 24720 (NW_013982187.1,NW_013982188.1) | brown_kiwi_ncbi.fa |
| dolphin | NA | NCBI | 2647 (NW_017842062.1,NW_017842064.1...) | dolphin_ncbi.fa |
| ferret | NA | NCBI | 7782 (NW_004569142.1,NW_004569143.1...) | ferret_ncbi.fa |
| golden eagle | NA | NCBI | 1141 (NW_011950869.1,NW_011950870.1...) | golden_eagle_ncbi.fa |
| marmoset | NA | NCBI | 14205 (chr1,chr2...chrX,chrY) | marmoset_ncbi.fa |
| opossum | NA | NCBI | 5016 (chr1,chr2...chrM,chrX) | opossum_ncbi.fa |
| rabbit | NA | NCBI | 3241 (chr1,chr2...chrX,chrM) | rabbit_ncbi.fa |
| Arabidopsis | TAIR 10 | Ensembl | 7 (1,2,3,4,5,Mt,Pt) | TAIR10_ensembl.fa |
| 中文名 | Species | Scientic name |
|---|---|---|
| 人类 | human | Homo sapiens |
| 小鼠 | mouse | Mus musculus |
| 大鼠 | rat | Rattus norvegicus |
| 青蛙 | frog | Xenopus tropicalis |
| 牛 | Cattle/Cow | Bos taurus |
| 家养狗 | Dog, domestic | Canis lupus familiaris |
| 猕猴 | Macaque, rhesus | Macaca mulatta |
| 黑猩猩 | Chimpanzee | Pan troglodytes |
| 斑马鱼 | Zebrafish | Danio rerio |
| 鸡 | Chicken | Gallus gallus |
| 羊驼 | Alpaca | Vicugna pacos |
| 狒狒 | Baboon | Papio anubis |
| 倭黑猩猩 | Bonobo | Pan paniscus |
| 几维鸟 | Brown kiwi | Apteryx australis mantelli |
| 猫 | Cat | Felis catus |
| 海豚 | Dolphin | Tursiops truncatus |
| 雪貂 | Ferret | Mustela putorius furo |
| 乌蛇 | Garter snake | Thamnophis sirtalis |
| 金雕; 鹫 | Golden eagle | Aquila chrysaetos canadensis |
| 绿长尾猴 | Green Monkey | Chlorocebus sabaeus |
| 狨; 绒 | Marmoset | Callithrix jacchus |
| 裸鼢鼠 | Naked Mole Rat | Heterocephalus glaber |
| 负鼠 | Opossum | Monodelphis domestica |
| 鸭嘴兽 | Platypus | Ornithorhynchus anatinus |
| 兔子 | Rabbit | Oryctolagus cuniculus |
| 绵羊 | Sheep | Ovis_aries |
| 拟南芥 | Arabidopsis | Arabidopsis_thaliana |