一、什么是参考基因组和基因组注释？先来理一理参考基因组，基因组注释文件间的关系。
自从 1990 启动的家喻户晓的人类基因组计划开始，全世界的科学家竭尽全力破译了第一个完整的人类基因组，从那时开始人类拿到了一本只有 ATCG 四个碱基书写的天书。后续人们逐步完善了基因组序列信息，并写在 Fasta 格式的文本文件“天书”中，这本天书就叫做参考基因组。
但是，直接拿天书来看是一脸懵逼的，于是大家开始利用实验技术手段开始着手解密这本天书，随后大量的基因以及非编码序列被人们详细的标记在参考基因组对应的位置。同时对该位置加入大量的注释细节，最终将这些信息写在 BED，GTF，GFF 格式的基因组注释文件 。所以也可以把基因组注释文件理解为字典，看不懂天书，翻翻字典就懂了。
随着时间的推移，在更先进技术的加持下，在已经构建好的基因组和注释信息上不断增加，删减，修改，就有了不同的版本。而每一个版本的参考基因组都会对应有一个基因组注释文件（天书和字典一一对应），接下来我们看看参考基因组版本是怎么指定的。
二、参考基因组版本命名在讲参考基因组之前，需要提到一个组织参考基因组联盟（Genome Reference Consortium），它是由 NCBI，EBI，桑格研究所等机构组成。GRC 利用最佳的技术装配，纠正，增加基因组序列，以此作为在生信分析领域作为参考的基因组。目前，该机构构建了人，小鼠，大鼠，斑马鱼，鸡的参考基因组。
人基因组官名叫 GRCh38 （Genome Reference Consortium Human Build 38），GRCh38 在UCSC基因组浏览器中还有个小名 hg38，这个小名对于大多数人来说是更亲切熟悉的。GRCh38 在 GenBank 中叫 GCA_000001405.15，在 RefSeq 中叫 GCF_000001405.26，虽然 GRC 组织建议在所有出版物和工具中使用该编号，但事实是前两种 GRCh38 和 hg38 对生信分析更常见。
在不更改染色体坐标的情况下，向参考基因组添加或替换新序列，这种打补丁的方式，会在基因组版本后加 .p （patch）来命名。
这就像在王者荣耀，英雄联盟中，为了维持游戏热度，会大幅修改游戏架构，流程，世界观，图片，叫大版本更新，而定期对某些英雄的面板属性修正，作为补丁。
举个例子，GRCh38 的第九个补丁，正式版本叫做 Genome Reference Consortium Human Build 38 patch release 9，简称 GRCh38.p9。在 GenBank 编号为 GCA_000001405.24，RefSeq 编号为 GCF_000001405.35。在 Ensemble 编号为 GRCh38，NCBI 编号为 GRCh38。
1、常用人参考基因组对应表发布时间
2013
2009
2006
GRC 官名
GRCh38
GRCh37
GRCh36
UCSC
hg38
hg19
hg18
Ensemble
GRCh38
GRCh37
GRCh36
GENCODE
38
19
3c
NCBI
GRCh38
GRCh37
GRCh36
GenBank
GCA_000001405
RefSeq
GCF_000001405
根据 GRC 官网信息，GRCh39 大版本将会无限停更，他们在考虑用新模型和序列来构建人类的参考基因组，细节不清楚，猜测有可能会有泛基因组内容。
2、常用小鼠参考基因组对应表发布时间
2020
2011
2007
GRC 官名
GRCm39
GRCm38
UCSC
m39
mm10
mm9
Ensemble
GRCm39
GRCm38
GENCODE
M27
M25
M1
NCBI
GRCm39
GRCm38
NCBIM37
三、下载1、NCBI这里提供两种下载方式，一种为网页界面下载，另一种为FTP下载。
可视化下载
进入网址https://www.ncbi.nlm.nih.gov/genome/browse#!/overview/
搜索物种下载界面FTP下载
随便提一下，Chrome 浏览器在18版本后由于安全原因已经不支持 ftp 协议，改用 https 协议，可以看到链接已经与之前的不同。
这里以下载人的参考基因组 GRCh38 为例：
https://ftp.ncbi.nlm.nih.gov/genomes/refseq/vertebrate_mammalian/Homo_sapiens/reference/GCF_000001405.39_GRCh38.p13
人类基因组注释文件：
GTF 格式：https://ftp.ncbi.nlm.nih.gov/genomes/refseq/vertebrate_mammalian/Homo_sapiens/annotation_releases/109/GCF_000001405.38_GRCh38.p12/GCF_000001405.38_GRCh38.p12_genomic.gtf.gz
GFF 格式：
https://ftp.ncbi.nlm.nih.gov/genomes/refseq/vertebrate_mammalian/Homo_sapiens/annotation_releases/109/GCF_000001405.38_GRCh38.p12/GCF_000001405.38_GRCh38.p12_genomic.gff.gz
如果以这种方式下载，其实已经可以路径中大概看出相关物种的下载地址，可以自行查询及下载其他物种。
2、Ensemble可视化下载
网址：http://asia.ensembl.org点击物种名，进入下载界面点击对应名称，下载参考基因组和基因组注释文件FTP下载
同样以下载人参考基因组 GRCh38 为例：
http://ftp.ensembl.org/pub/current_fasta/homo_sapiens/dna/Homo_sapiens.GRCh38.dna.toplevel.fa.gz
GTF 文件：http://ftp.ensembl.org/pub/current_gtf/homo_sapiens/Homo_sapiens.GRCh38.104.gtf.gz
GTT 文件：http://ftp.ensembl.org/pub/current_gff3/homo_sapiens/Homo_sapiens.GRCh38.104.gff3.gz
3、GENCODE如果小伙伴研究的物种只涉及人类和小鼠，极力推荐 GENCOE，这里有着相较其他数据库，最新最全的基因组和其注释信息。
网址：https://www.gencodegenes.org/点击人类的最新版点击下载基因组注释文件点击下载参考基因组文件4、UCSC相对其他下载方式，UCSC 本职的工作是做基因组浏览器的，因此也可以从下图看到，在这里可以根据自己定义来下载相对于的基因组区域，比如 prime，exon，gene，transcript等等。
网址：http://genome.ucsc.edu/cgi-bin/hgTables下载：设置参数如下，然后点击下载参考基因组及注释文件5、iGenomesiGenomes是常见分析生物的参考序列和注释文件的集合。这些文件已从Ensembl，NCBI或UCSC下载。染色体名称已更改为简单且与下载源一致。每个iGenome都可以作为压缩文件使用，其中包含生物体的单个基因组构建的序列和注释文件。
网址：https://support.illumina.com/sequencing/sequencing_software/igenome.html
由亚马逊资助的生物信息参考基因组下载站点，有各种参考基因组，注释文件，软件索引等常用文件，并且有着极快的下载速度，但是缺点是只有常用的物种。
**站点：**https://ewels.github.io/AWS-iGenomes/
四、其他参考基因组信息SPECIES
UCSC VERSION
RELEASE DATE
RELEASE NAME
STATUS
MAMMALS
Human
hg38
Dec. 2013
Genome Reference Consortium GRCh38
Available
hg19
Feb. 2009
Genome Reference Consortium GRCh37
Available
hg18
Mar. 2006
NCBI Build 36.1
Available
hg17
May 2004
NCBI Build 35
Available
hg16
Jul. 2003
NCBI Build 34
Available
hg15
Apr. 2003
NCBI Build 33
Archived
hg13
Nov. 2002
NCBI Build 31
Archived
hg12
Jun. 2002
NCBI Build 30
Archived
hg11
Apr. 2002
NCBI Build 29
Archived (data only)
hg10
Dec. 2001
NCBI Build 28
Archived (data only)
hg8
Aug. 2001
UCSC-assembled
Archived (data only)
hg7
Apr. 2001
UCSC-assembled
Archived (data only)
hg6
Dec. 2000
UCSC-assembled
Archived (data only)
hg5
Oct. 2000
UCSC-assembled
Archived (data only)
hg4
Sep. 2000
UCSC-assembled
Archived (data only)
hg3
Jul. 2000
UCSC-assembled
Archived (data only)
hg2
Jun. 2000
UCSC-assembled
Archived (data only)
hg1
May 2000
UCSC-assembled
Archived (data only)
Alpaca
vicPac2
Mar. 2013
Broad Institute Vicugna_pacos-2.0.1
Available
vicPac1
Jul. 2008
Broad Institute VicPac1.0
Available
Armadillo
dasNov3
Dec. 2011
Broad Institute DasNov3
Available
Baboon
papAnu4
Apr. 2017
Human Genome Sequencing Center
Available
papAnu2
Mar. 2012
Baylor College of Medicine Panu_2.0
Available
papHam1
Nov. 2008
Baylor College of Medicine HGSC Pham_1.0
Available
Bison
bisBis1
Oct. 2014
Univ. of Maryland Bison_UMD1.0
Available
Bonobo
panPan3
May 2020
University of Washington
Available
panPan2
Dec. 2015
Max-Planck Institute for Evolutionary Anthropology panpan1.1
Available
panPan1
May 2012
Max-Planck Institute panpan1
Available
Brown kiwi
aptMan1
Jun. 2015
Max-Planck Institute for Evolutionary Anthropology AptMant0
Available
Bushbaby
otoGar3
Mar. 2011
Broad Institute OtoGar3
Available
Cat
felCat9
Nov. 2017
Genome Sequencing Center (GSC) at Washington University (WashU) School of Medicine Felis_catus_9.0
Available
felCat8
Nov. 2014
ICGSC Felis_catus_8.0
Available
felCat5
Sep. 2011
ICGSC Felis_catus-6.2
Available
felCat4
Dec. 2008
NHGRI catChrV17e
Available
felCat3
Mar. 2006
Broad Institute Release 3
Available
Chimp
panTro6
Jan. 2018
Clint_PTRv2
Available
panTro5
May 2016
CGSC Build 3.0
Available
panTro4
Feb. 2011
CGSC Build 2.1.4
Available
panTro3
Oct. 2010
CGSC Build 2.1.3
Available
panTro2
Mar. 2006
CGSC Build 2.1
Available
panTro1
Nov. 2003
CGSC Build 1.1
Available
Chinese hamster
criGri1
Jul. 2013
Beijing Genomics Institution-Shenzhen C_griseus_v1.0
Available
Chinese hamster ovary cell line
criGriChoV2
Jun. 2017
Eagle Genomics Ltd CHOK1S_HZDv1
Available
criGriChoV1
Aug. 2011
Beijing Genomics Institute CriGri_1.0
Available
Chinese pangolin
manPen1
Aug. 2014
Washington University (WashU) M_pentadactyla-1.1.1
Available
Cow
bosTau9
Apr. 2018
USDA ARS
Available
bosTau8
Jun. 2014
University of Maryland v3.1.1
Available
bosTau7
Oct. 2011
Baylor College of Medicine HGSC Btau_4.6.1
Available
bosTau6
Nov. 2009
University of Maryland v3.1
Available
bosTau4
Oct. 2007
Baylor College of Medicine HGSC Btau_4.0
Available
bosTau3
Aug. 2006
Baylor College of Medicine HGSC Btau_3.1
Available
bosTau2
Mar. 2005
Baylor College of Medicine HGSC Btau_2.0
Available
bosTau1
Sep. 2004
Baylor College of Medicine HGSC Btau_1.0
Archived
Crab-eating macaque
macFas5
Jun. 2013
Washington University Macaca_fascicularis_5.0
Available
Dog
canFam5
May 2019
University of Michigan
Available
canFam4
Mar. 2020
Uppsala University
Available
canFam3
Sep. 2011
Broad Institute v3.1
Available
canFam2
May 2005
Broad Institute v2.0
Available
canFam1
Jul. 2004
Broad Institute v1.0
Available
Dolphin
turTru2
Oct. 2011
Baylor College of Medicine Ttru_1.4
Available
Elephant
loxAfr3
Jul. 2009
Broad Institute LoxAfr3
Available
Ferret
musFur1
Apr. 2011
Ferret Genome Sequencing Consortium MusPutFur1.0
Available
Garter snake
thaSir1
Jun. 2015
Washington University Thamnophis_sirtalis-6.0
Available
Gibbon
nomLeu3
Oct. 2012
Gibbon Genome Sequencing Consortium Nleu3.0
Available
nomLeu2
Jun. 2011
Gibbon Genome Sequencing Consortium Nleu1.1
Available
nomLeu1
Jan. 2010
Gibbon Genome Sequencing Consortium Nleu1.0
Available
Golden eagle
aquChr2
Oct. 2014
University of Washington aquChr2-1.0.2
Available
Golden snub-nosed monkey
rhiRox1
Oct. 2014
Novogene Rrox_v1
Available
Gorilla
gorGor6
Aug. 2019
University of Washington
Available
gorGor5
Mar. 2016
University of Washington GSMRT3
Available
gorGor4
Dec. 2014
Wellcome Trust Sanger Institute gorGor4
Available
gorGor3
May 2011
Wellcome Trust Sanger Institute gorGor3.1
Available
Green Monkey
chlSab2
Mar. 2014
Vervet Genomics Consortium 1.1
Available
Guinea pig
cavPor3
Feb. 2008
Broad Institute cavPor3
Available
Hawaiian monk seal
neoSch1
Jun. 2017
Johns Hopkins University ASM220157v1
Available
Hedgehog
eriEur2
May 2012
Broad Institute EriEur2.0
Available
eriEur1
Jun. 2006
Broad Institute Draft_v1
Available
Horse
equCab3
Jan. 2018
University of Louisville
Available
equCab2
Sep. 2007
Broad Institute EquCab2
Available
equCab1
Jan. 2007
Broad Institute EquCab1
Available
Kangaroo rat
dipOrd1
Jul. 2008
Baylor/Broad Institute DipOrd1.0
Available
Malayan flying lemur
galVar1
Jul. 2014
WashU G_variegatus-3.0.2
Available
Manatee
triMan1
Oct. 2011
Broad Institute TriManLat1.0
Available
Marmoset
calJac4
May 2020
Washington University Callithrix_jacchus_cj1700_1.1
Available
Marmoset
calJac3
Mar. 2009
WUSTL Callithrix_jacchus-v3.2
Available
calJac1
Jun. 2007
WUSTL Callithrix_jacchus-v2.0.2
Available
Megabat
pteVam1
Jul. 2008
Broad Institute Ptevap1.0
Available
Microbat
myoLuc2
Jul. 2010
Broad Institute MyoLuc2.0
Available
Minke whale
balAcu1
Oct. 2013
KORDI BalAcu1.0
Available
Mouse
mm39
Jun. 2020
Genome Reference Consortium Mouse Build 39
Available
mm10
Dec. 2011
Genome Reference Consortium GRCm38
Available
mm9
Jul. 2007
NCBI Build 37
Available
mm8
Feb. 2006
NCBI Build 36
Available
mm7
Aug. 2005
NCBI Build 35
Available
mm6
Mar. 2005
NCBI Build 34
Archived
mm5
May 2004
NCBI Build 33
Archived
mm4
Oct. 2003
NCBI Build 32
Archived
mm3
Feb. 2003
NCBI Build 30
Archived
mm2
Feb. 2002
MGSCv3
Archived
mm1
Nov. 2001
MGSCv2
Archived (data only)
Mouse lemur
micMur2
May 2015
Baylor/Broad Institute Mmur_2.0
Available
micMur1
Jul. 2007
Broad Institute MicMur1.0
Available
Naked mole-rat
hetGla2
Jan. 2012
Broad Institute HetGla_female_1.0
Available
hetGla1
Jul. 2011
Beijing Genomics Institute HetGla_1.0
Available
Opossum
monDom5
Oct. 2006
Broad Institute release MonDom5
Available
monDom4
Jan. 2006
Broad Institute release MonDom4
Available
monDom1
Oct. 2004
Broad Institute release MonDom1
Available
Orangutan
ponAbe2
Jul. 2007
WUSTL Pongo_albelii-2.0.2
Available
ponAbe3
Jan. 2018
Susie_PABv2/ponAbe3
Available
Panda
ailMel1
Dec. 2009
BGI-Shenzhen AilMel 1.0
Available
Pig
susScr11
Feb. 2017
Swine Genome Sequencing Consortium Sscrofa11.1
Available
susScr3
Aug. 2011
Swine Genome Sequencing Consortium Sscrofa10.2
Available
susScr2
Nov. 2009
Swine Genome Sequencing Consortium Sscrofa9.2
Available
Pika
ochPri3
May 2012
Broad Institute OchPri3.0
Available
ochPri2
Jul. 2008
Broad Institute OchPri2
Available
Platypus
ornAna2
Feb. 2007
WUSTL v5.0.1
Available
ornAna1
Mar. 2007
WUSTL v5.0.1
Available
Proboscis Monkey
nasLar1
Nov. 2014
Proboscis Monkey Functional Genome Consortium Charlie1.0
Available
Rabbit
oryCun2
Apr. 2009
Broad Institute release OryCun2
Available
Rat
rn7
Nov. 2020
Wellcome Sanger Institute mRatBN7.2
Available
rn6
Jul. 2014
RGSC Rnor_6.0
Available
rn5
Mar. 2012
RGSC Rnor_5.0
Available
rn4
Nov. 2004
Baylor College of Medicine HGSC v3.4
Available
rn3
Jun. 2003
Baylor College of Medicine HGSC v3.1
Available
rn2
Jan. 2003
Baylor College of Medicine HGSC v2.1
Archived
rn1
Nov. 2002
Baylor College of Medicine HGSC v1.0
Archived
Rhesus
rheMac10
Feb. 2019
The Genome Institute at Washington University School of Medicine Mmul_10
Available
rheMac8
Nov. 2015
Baylor College of Medicine HGSC Mmul_8.0.1
Available
rheMac3
Oct. 2010
Beijing Genomics Institute CR_1.0
Available
rheMac2
Jan. 2006
Baylor College of Medicine HGSC v1.0 Mmul_051212
Available
rheMac1
Jan. 2005
Baylor College of Medicine HGSC Mmul_0.1
Archived
Rock hyrax
proCap1
Jul. 2008
Baylor College of Medicine HGSC Procap1.0
Available
Sheep
oviAri4
Dec. 2015
ISGC Oar_v4.0
Available
oviAri3
Aug. 2012
ISGC Oar_v3.1
Available
oviAri1
Feb. 2010
ISGC Ovis aries 1.0
Available
Shrew
sorAra2
Aug. 2008
Broad Institute SorAra2.0
Available
sorAra1
Jun. 2006
Broad Institute SorAra1.0
Available
Sloth
choHof1
Jul. 2008
Broad Institute ChoHof1.0
Available
Squirrel
speTri2
Nov. 2011
Broad Institute SpeTri2.0
Available
Squirrel monkey
saiBol1
Oct. 2011
Broad Institute SaiBol1.0
Available
Tarsier
tarSyr2
Sep. 2013
WashU Tarsius_syrichta-2.0.1
Available
tarSyr1
Aug. 2008
WUSTL/Broad Institute Tarsyr1.0
Available
Tasmanian devil
sarHar1
Feb. 2011
Wellcome Trust Sanger Institute Devil_refv7.0
Available
Tenrec
echTel2
Nov. 2012
Broad Institute EchTel2.0
Available
echTel1
Jul. 2005
Broad Institute echTel1
Available
Tree shrew
tupBel1
Dec. 2006
Broad Institute Tupbel1.0
Available
Wallaby
macEug2
Sep. 2009
Tammar Wallaby Genome Sequencing Consortium Meug_1.1
Available
White rhinoceros
cerSim1
May 2012
Broad Institute CerSimSim1.0
Available
VERTEBRATES
African clawed frog
xenLae2
Aug. 2016
Int. Xenopus Sequencing Consortium
Available
American alligator
allMis1
Aug. 2012
Int. Crocodilian Genomes Working Group allMis0.2
Available
Atlantic cod
gadMor1
May 2010
Genofisk GadMor_May2010
Available
Budgerigar
melUnd1
Sep. 2011
WUSTL v6.3
Available
Chicken
galGal6
Mar. 2018
GRCg6 Gallus-gallus-6.0
Available
galGal5
Dec. 2015
ICGC Gallus-gallus-5.0
Available
galGal4
Nov. 2011
ICGC Gallus-gallus-4.0
Available
galGal3
May 2006
WUSTL Gallus-gallus-2.1
Available
galGal2
Feb. 2004
WUSTL Gallus-gallus-1.0
Available
Coelacanth
latCha1
Aug. 2011
Broad Institute LatCha1
Available
Elephant shark
calMil1
Dec. 2013
IMCB Callorhinchus_milli_6.1.3
Available
Fugu
fr3
Oct. 2011
JGI v5.0
Available
fr2
Oct. 2004
JGI v4.0
Available
fr1
Aug. 2002
JGI v3.0
Available
Lamprey
petMar3
Dec. 2017
University of Kentucky Pmar_germline 1.0
Available
petMar2
Sep. 2010
WUGSC 7.0
Available
petMar1
Mar. 2007
WUSTL v3.0
Available
Lizard
anoCar2
May 2010
Broad Institute AnoCar2
Available
anoCar1
Feb. 2007
Broad Institute AnoCar1
Available
Medaka
oryLat2
Oct. 2005
NIG v1.0
Available
Medium ground finch
geoFor1
Apr. 2012
BGI GeoFor_1.0 / NCBI 13302
Available
Nile tilapia
oreNil2
Jan. 2011
Broad Institute Release OreNil1.1
Available
Painted turtle
chrPic1
Dec. 2011
IPTGSC Chrysemys_picta_bellii-3.0.1
Available
Stickleback
gasAcu1
Feb. 2006
Broad Institute Release 1.0
Available
Tetraodon
tetNig2
Mar. 2007
Genoscope v7
Available
tetNig1
Feb. 2004
Genoscope v7
Available
Tibetan frog
nanPar1
Mar. 2015
Beijing Genomics Institute BGI_ZX_20015
Available
Turkey
melGal5
Nov. 2014
Turkey Genome Consortium v5.0
Available
melGal1
Dec. 2009
Turkey Genome Consortium v2.01
Available
X. tropicalis
xenTro9
Jul. 2016
JGI v.9.1
Available
xenTro7
Sep. 2012
JGI v.7.0
Available
xenTro3
Nov. 2009
JGI v.4.2
Available
xenTro2
Aug. 2005
JGI v.4.1
Available
xenTro1
Oct. 2004
JGI v.3.0
Available
Zebra finch
taeGut2
Feb. 2013
WashU taeGut324
Available
taeGut1
Jul. 2008
WUSTL v3.2.4
Available
Zebrafish
danRer11
May 2017
Genome Reference Consortium GRCz11
Available
danRer10
Sep. 2014
Genome Reference Consortium GRCz10
Available
danRer7
Jul. 2010
Sanger Institute Zv9
Available
danRer6
Dec. 2008
Sanger Institute Zv8
Available
danRer5
Jul. 2007
Sanger Institute Zv7
Available
danRer4
Mar. 2006
Sanger Institute Zv6
Available
danRer3
May 2005
Sanger Institute Zv5
Available
danRer2
Jun. 2004
Sanger Institute Zv4
Archived
danRer1
Nov. 2003
Sanger Institute Zv3
Archived
DEUTEROSTOMES
C. intestinalis
ci3
Apr. 2011
Kyoto KH
Available
C. intestinalis
ci2
Mar. 2005
JGI v2.0
Available
ci1
Dec. 2002
JGI v1.0
Available
Lancelet
braFlo1
Mar. 2006
JGI v1.0
Available
S. purpuratus
strPur2
Sep. 2006
Baylor College of Medicine HGSC v. Spur 2.1
Available
strPur1
Apr. 2005
Baylor College of Medicine HGSC v. Spur_0.5
Available
INSECTS
A. mellifera
apiMel2
Jan. 2005
Baylor College of Medicine HGSC v.Amel_2.0
Available
apiMel1
Jul. 2004
Baylor College of Medicine HGSC v.Amel_1.2
Available
A. gambiae
anoGam3
Oct. 2006
International Consortium for the Sequencing of Anopheles Genome AgamP3
Available
anoGam1
Feb. 2003
IAGP v.MOZ2
Available
D. ananassae
droAna2
Aug. 2005
Agencourt Arachne release
Available
droAna1
Jul. 2004
TIGR Celera release
Available
D. erecta
droEre1
Aug. 2005
Agencourt Arachne release
Available
D. grimshawi
droGri1
Aug. 2005
Agencourt Arachne release
Available
D. melanogaster
dm6
Aug. 2014
BDGP Release 6 + ISO1 MT
Available
dm3
Apr. 2006
BDGP Release 5
Available
dm2
Apr. 2004
BDGP Release 4
Available
dm1
Jan. 2003
BDGP Release 3
Available
D. mojavensis
droMoj2
Aug. 2005
Agencourt Arachne release
Available
droMoj1
Aug. 2004
Agencourt Arachne release
Available
D. persimilis
droPer1
Oct. 2005
Broad Institute release
Available
D. pseudoobscura
dp3
Nov. 2004
FlyBase Release 1.0
Available
dp2
Aug. 2003
Baylor College of Medicine HGSC Freeze 1
Available
D. sechellia
droSec1
Oct. 2005
Broad Institute Release 1.0
Available
D. simulans
droSim1
Apr. 2005
WUSTL Release 1.0
Available
D. virilis
droVir2
Aug. 2005
Agencourt Arachne release
Available
droVir1
Jul. 2004
Agencourt Arachne release
Available
D. yakuba
droYak2
Nov. 2005
WUSTL Release 2.0
Available
droYak1
Apr. 2004
WUSTL Release 1.0
Available
NEMATODES
C. brenneri
caePb2
Feb. 2008
WUSTL 6.0.1
Available
caePb1
Jan. 2007
WUSTL 4.0
Available
C. briggsae
cb3
Jan. 2007
WUSTL Cb3
Available
cb1
Jul. 2002
WormBase v. cb25.agp8
Available
C. elegans
ce11
Feb. 2013
C. elegans Sequencing Consortium WBcel235
Available
ce10
Oct. 2010
WormBase v. WS220
Available
ce6
May 2008
WormBase v. WS190
Available
ce4
Jan. 2007
WormBase v. WS170
Available
ce2
Mar. 2004
WormBase v. WS120
Available
ce1
May 2003
WormBase v. WS100
Archived
C. japonica
caeJap1
Mar. 2008
WUSTL 3.0.2
Available
C. remanei
caeRem3
May 2007
WUSTL 15.0.1
Available
caeRem2
Mar. 2006
WUSTL 1.0
Available
P. pacificus
priPac1
Feb. 2007
WUSTL 5.0
Available
OTHER
Sea Hare
aplCal1
Sep. 2008
Broad Release Aplcal2.0
Available
Yeast
sacCer3
April 2011
SGD April 2011 sequence
Available
sacCer2
June 2008
SGD June 2008 sequence
Available
sacCer1
Oct. 2003
SGD 1 Oct 2003 sequence
Available
VIRUSES
Ebola Virus
eboVir3
June 2014
Sierra Leone 2014 (G3683/KM034562.1)
Available
SARS-CoV-2
wuhCor1
Jan. 2020
SARS-CoV-2 ASM985889v3
Available
https://www.ncbi.nlm.nih.gov/grc
http://genomeref.blogspot.com/
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