Birds Genomes assembly hubs

Assemblies from NCBI/Genbank/Refseq sources, subset of birds only.

How to view the hub

Options:

  1. The links to the genome browser in the table below will attach that one specific assembly to the genome browser. This is most likely what you want.
  2. Instead, you can attach the entire set of assemblies as one group to the genome browser with the following links depending upon which of our mirror site browsers you prefer to use:
  3. To manually attach all the assemblies in this hub to genome browsers that are not one of the three UCSC mirror sites:
    1. From the blue navigation bar, go to My Data -> Track Hubs
    2. Then select the My Hubs tab and enter this URL into the textbox:
      https://hgdownload.soe.ucsc.edu/hubs/birds/hub.txt
    3. Once you have added the URL to the entry form, press the Add Hub button to add the hub.

After adding the hub, you will be redirected to the gateway page. The genome assemblies can be selected from the Birds Hub Assembly dropdown menu. Instead of adding all the assemblies in one collected group, use the individual view in browser in the table below.

See also: assembly statisticstrack statistics <== additional information for these assemblies.


Data resource links

NOTE: Click on the column headers to sort the table by that column
The common name/view in browser will attach only that single assembly to the genome browser.
The scientific name/and data download link provides access to the files for that one assembly hub.
The class/VGP link provides access to the VGP GenomeArk page for that genome
The other links provide access to NCBI resources for these assemblies.

count common name and
view in browser
scientific name
and data download
NCBI assembly bioSamplebioProject assembly date,
source link
1 Adelie penguin Pygoscelis adeliae GCF_000699105.1_ASM69910v1 SAMN02596601 PRJNA235983 2014-06-06
2 American crow Corvus brachyrhynchos GCF_000691975.1_ASM69197v1 SAMN02297499 PRJNA212869 2014-06-02
3 Anna's hummingbird Calypte anna GCF_003957555.1_bCalAnn1_v1.p SAMN02265252 PRJNA489139 2019-05-16
4 bald eagle Haliaeetus leucocephalus GCF_000737465.1_Haliaeetus_leucocephalus-4.0 SAMN02664716 PRJNA237821 2014-08-04
5 bar-tailed trogon Apaloderma vittatum GCF_000703405.1_ASM70340v1 SAMN02318033 PRJNA212878 2014-06-16
6 Barn owl Tyto alba GCF_000687205.1_ASM68720v1 SAMN02339894 PRJNA212909 2014-05-08
7 birds Nothoprocta perdicaria GCF_003342845.1_notPer1 SAMN08476459 PRJNA433110 2018-07-26
8 birds Camarhynchus parvulus GCF_901933205.1_STF_HiC SAMEA5603054 PRJEB32528 2019-09-06
9 blue tit Cyanistes caeruleus GCF_002901205.1_cyaCae2 SAMN03734925 PRJNA284903 2018-01-26
10 blue-crowned manakin Lepidothrix coronata GCF_001604755.1_Lepidothrix_coronata-1.0 SAMN04274560 PRJNA300662 2016-03-31
11 brown roatelo Mesitornis unicolor GCF_000695765.1_ASM69576v1 SAMN02339298 PRJNA212899 2014-06-02
12 budgerigar Melopsittacus undulatus GCF_000238935.1_Melopsittacus_undulatus_6.3 SAMN02981360 PRJNA72527 2012-01-02
13 burrowing owl Athene cunicularia GCF_003259725.1_athCun1 SAMN08961563 PRJNA431202 2018-06-21
14 carmine bee-eater Merops nubicus GCF_000691845.1_ASM69184v1 SAMN02338310 PRJNA212898 2014-05-16
15 chicken Gallus gallus GCF_000002315.6_GRCg6a SAMN02981218 PRJNA13342 2018-03-27
16 chimney swift Chaetura pelagica GCF_000747805.1_ChaPel_1.0 SAMN03018471 PRJNA210808 2014-09-04
17 chuck-will's-widow Antrostomus carolinensis GCF_000700745.1_ASM70074v1 SAMN02318612 PRJNA212888 2014-06-10
18 collared flycatcher Ficedula albicollis GCF_000247815.1_FicAlb1.5 SAMN02981387 PRJNA75089 2013-06-27
19 Common canary Serinus canaria GCF_007115625.1_cibio_Scana_2019 SAMN12017177 PRJNA548289 2019-07-18
20 common cuckoo Cuculus canorus GCF_000709325.1_ASM70932v1 SAMN02298149 PRJNA212870 2014-06-17
21 Common starling Sturnus vulgaris GCF_001447265.1_Sturnus_vulgaris-1.0 SAMN04029017 PRJNA293892 2015-11-20
22 crested ibis Nipponia nippon GCF_000708225.1_ASM70822v1 SAMN02596464 PRJNA232572 2014-06-16
23 cuckoo roller Leptosomus discolor GCF_000691785.1_ASM69178v1 SAMN02333687 PRJNA212897 2014-05-23
24 Dalmatian pelican Pelecanus crispus GCF_000687375.1_ASM68737v1 SAMN02339887 PRJNA212901 2014-05-09
25 Downy woodpecker Picoides pubescens GCF_000699005.1_ASM69900v1 SAMN02314405 PRJNA212874 2014-06-06
26 emperor penguin Aptenodytes forsteri GCF_000699145.1_ASM69914v1 SAMN02596600 PRJNA235982 2014-06-06
27 emu Dromaius novaehollandiae GCF_003342905.1_droNov1 SAMN08476457 PRJNA433110 2018-07-26
28 golden-collared manakin Manacus vitellinus GCF_001715985.3_ASM171598v3 SAMN02299332 PRJNA335611 2019-07-03
29 great cormorant Phalacrocorax carbo GCF_000708925.1_ASM70892v1 SAMN02339889 PRJNA212903 2014-06-17
30 Great Tit Parus major GCF_001522545.3_Parus_major1.1 SAMN03083587 PRJNA208335 2019-01-15
31 helmeted guineafowl Numida meleagris GCF_002078875.1_NumMel1.0 SAMN05969731 PRJNA352321 2017-06-01
32 hoatzin Opisthocomus hoazin GCF_000692075.1_ASM69207v1 SAMN02302474 PRJNA212873 2014-05-19
33 Japanese quail Coturnix japonica GCF_001577835.1_Coturnix_japonica_2.0 SAMN03989050 PRJNA292031 2016-03-01
34 Kakapo Strigops habroptila GCF_004027225.1_bStrHab1_v1.p SAMN09948751 PRJNA489135 2019-01-18
35 Kea Nestor notabilis GCF_000696875.1_ASM69687v1 SAMN02339299 PRJNA212900 2014-06-05
36 killdeer Charadrius vociferus GCF_000708025.1_ASM70802v2 SAMN02296710 PRJNA212867 2014-08-05
37 little egret Egretta garzetta GCF_000687185.1_ASM68718v1 SAMN02596466 PRJNA232959 2014-05-09
38 Macqueen's bustard Chlamydotis macqueenii GCF_000695195.1_ASM69519v1 SAMN02324157 PRJNA212891 2014-06-02
39 mallard Anas platyrhynchos GCF_003850225.1_IASCAAS_PekingDuck_PBH1.5 SAMN10245527 PRJNA496533 2018-11-29
40 medium ground-finch Geospiza fortis GCF_000277835.1_GeoFor_1.0 SAMN00839579 PRJNA156703 2012-07-25
41 Northern fulmar Fulmarus glacialis GCF_000690835.1_ASM69083v1 SAMN02324803 PRJNA212894 2014-05-13
42 Okarito brown kiwi Apteryx rowi GCF_003343035.1_aptRow1 SAMN08476454 PRJNA433110 2018-07-26
43 peregrine falcon Falco peregrinus GCF_000337955.1_F_peregrinus_v1.0 SAMN02981425 PRJNA159791 2013-02-05
44 red-crested turaco Tauraco erythrolophus GCF_000709365.1_ASM70936v1 SAMN02339893 PRJNA212908 2014-06-25
45 Red-legged seriema Cariama cristata GCF_000690535.1_ASM69053v1 SAMN02318733 PRJNA212889 2014-05-12
46 red-throated loon Gavia stellata GCF_000690875.1_ASM69087v1 SAMN02324832 PRJNA212895 2014-05-13
47 rifleman Acanthisitta chloris GCF_000695815.1_ASM69581v1 SAMN02318032 PRJNA212877 2014-05-27
48 Ring-necked pheasant Phasianus colchicus GCF_004143745.1_ASM414374v1 SAMN08888240 PRJNA449162 2019-02-06
49 rock pigeon Columba livia GCF_000337935.1_Cliv_1.0 SAMN02981415 PRJNA167554 2013-02-11
50 ruff Calidris pugnax GCF_001431845.1_ASM143184v1 SAMN03491621 PRJNA281024 2015-11-04
51 saffron-crested tyrant-manakin Neopelma chrysocephalum GCF_003984885.1_ASM398488v2 SAMN08784363 PRJNA445439 2018-12-28
52 Saker falcon Falco cherrug GCF_000337975.1_F_cherrug_v1.0 SAMN02981426 PRJNA168071 2013-02-05
53 speckled mousebird Colius striatus GCF_000690715.1_ASM69071v1 SAMN02324230 PRJNA212892 2014-05-13
54 sunbittern Eurypyga helias GCF_000690775.1_ASM69077v1 SAMN02324546 PRJNA212893 2014-05-13
55 Tibetan ground-tit Pseudopodoces humilis GCF_000331425.1_PseHum1.0 SAMN02981490 PRJNA175930 2013-01-11
56 turkey Meleagris gallopavo GCF_000146605.3_Turkey_5.1 SAMN02981253 PRJNA42129 2014-11-24
57 White-ruffed manakin Corapipo altera GCF_003945725.1_ASM394572v1 SAMN10424454 PRJNA505529 2018-12-14
58 white-tailed eagle Haliaeetus albicilla GCF_000691405.1_ASM69140v1 SAMN02333670 PRJNA212896 2014-05-15
59 White-tailed tropicbird Phaethon lepturus GCF_000687285.1_ASM68728v1 SAMN02339888 PRJNA212902 2014-05-08
60 white-throated sparrow Zonotrichia albicollis GCF_000385455.1_Zonotrichia_albicollis-1.0.1 SAMN02981528 PRJNA197293 2013-04-30
61 white-throated tinamou Tinamus guttatus GCF_000705375.1_ASM70537v2 SAMN02316659 PRJNA212876 2014-08-05
62 willow flycatcher Empidonax traillii GCF_003031625.1_ASM303162v1 SAMN08663748 PRJNA437496 2018-04-03
63 Wire-tailed manakin Pipra filicauda GCF_003945595.1_ASM394559v1 SAMN08774045 PRJNA445296 2018-12-14
64 yellow-throated sandgrouse Pterocles gutturalis GCF_000699245.1_ASM69924v1 SAMN02339892 PRJNA212906 2014-06-09
65 zebra finch Taeniopygia guttata GCF_003957565.1_bTaeGut1_v1.p SAMN02981239 PRJNA489098 2019-05-16

Additional hubs with collections of assemblies
Assembly hubs index pages:  Primates Mammals Birds Fish other vertebrates
Hubs assembly statistics:  Primates Mammals Birds Fish other vertebrates
Hubs track statistics:  Primates Mammals Birds Fish other vertebrates