e18510fd8cce5a41aac912da2ca49fa910e2bc5f markd Fri Nov 12 07:35:55 2021 -0800 updated doc for metabat common name fix diff --git src/hg/utils/phyloTrees/dbCommonScientificCladeOrderkey.tab src/hg/utils/phyloTrees/dbCommonScientificCladeOrderkey.tab index 540fdf9..71b324b 100644 --- src/hg/utils/phyloTrees/dbCommonScientificCladeOrderkey.tab +++ src/hg/utils/phyloTrees/dbCommonScientificCladeOrderkey.tab @@ -1,238 +1,238 @@ # UCSC<tab>common<tab>Scientific<tab>group<tab>clade<tab>orderKey # dbase name name menu hg38 Human Homo sapiens primate primate 130 hg19 Human Homo sapiens primate primate 140 panTro4 Chimp Pan troglodytes primate primate 229 panPan1 Bonobo Pan paniscus primate primate 245 gorGor3 Gorilla Gorilla gorilla gorilla primate primate 250 ponAbe2 Orangutan Pongo pygmaeus abelii primate primate 310 nomLeu3 Gibbon Nomascus leucogenys primate primate 328 chlSab2 Green monkey Chlorocebus sabaeus primate primate 339 chlSab1 Green monkey Chlorocebus sabaeus primate primate 340 rheMac3 Rhesus Macaca mulatta primate primate 359 macFas5 Crab-eating macaque Macaca fascicularis primate primate 380 papHam1 Baboon Papio hamadryas primate primate 390 papAnu2 Baboon Papio anubis primate primate 390 nasLar1 Proboscis monkey Nasalis larvatus primate primate 392 saiBol1 Squirrel monkey Saimiri boliviensis primate primate 395 calJac3 Marmoset Callithrix jacchus primate primate 400 tarSyr1 Tarsier Tarsius syrichta primate primate 410 micMur1 Mouse lemur Microcebus murinus primate primate 460 otoGar3 Bushbaby Otolemur garnettii primate primate 464 tupBel1 Tree shrew Tupaia belangeri primate scandentia 500 tupChi1 Chinese tree shrew Tupaia chinensis primate scandentia 510 galVar1 Malayan flying lemur Galeopterus variegatus mammal dermoptera 900 mm10 Mouse Mus musculus rodent glires 1209 rn5 Rat Rattus norvegicus rodent glires 1559 octDeg1 Brush-tailed rat Octodon degus rodent glires 1575 dipOrd1 Kangaroo rat Dipodomys ordii rodent glires 1580 jacJac1 Lesser Egyptian jerboa Jaculus jaculus rodent glires 1590 perManBai1 Prairie deer mouse Peromyscus maniculatus bairdii rodent glires 1595 micOch1 Prairie vole Microtus ochrogaster rodent glires 1600 criGri1 Chinese hamster Cricetulus griseus rodent glires 1610 mesAur1 Golden hamster Mesocricetus auratus rodent glires 1620 hetGla2 Naked mole-rat Heterocephalus glaber rodent glires 1649 nanGal1 Upper Galilee mountains blind mole rat Nannospalax galili rodent glires 1649 cavPor3 Guinea pig Cavia porcellus rodent glires 1680 chiLan1 Chinchilla Chinchilla lanigera rodent glires 1700 oryCun2 Rabbit Oryctolagus cuniculus rodent glires 1890 speTri2 Squirrel Spermophilus tridecemlineatus rodent glires 1909 ochPri3 Pika Ochotona princeps rodent glires 1929 ochPri2 Pika Ochotona princeps rodent glires 1930 susScr3 Pig Sus scrofa mammal cetartiodactyla 2349 vicPac2 Alpaca Vicugna pacos mammal cetartiodactyla 2359 panHod1 Tibetan antelope Pantholops hodgsonii mammal cetartiodactyla 2362 turTru2 Dolphin Tursiops truncatus mammal cetartiodactyla 2364 lipVex1 Yangtze river dolphin Lipotes vexillifer mammal cetartiodactyla 2366 orcOrc1 Killer whale Orcinus orca mammal cetartiodactyla 2367 phyCat1 Sperm whale Physeter catodon mammal cetartiodactyla 2368 balAcu1 Minke whale Balaenoptera acutorostrata scammoni mammal cetartiodactyla 2369 oviAri3 Sheep Ovis aries mammal cetartiodactyla 2369 capHir1 Domestic goat Capra hircus mammal cetartiodactyla 2375 bosTau8 Cow Bos taurus mammal cetartiodactyla 2378 bosTau7 Cow Bos taurus mammal cetartiodactyla 2379 bosMut1 Wild yak Bos grunniens mutus mammal cetartiodactyla 2381 bubBub1 Water buffalo Bubalus bubalis mammal cetartiodactyla 2383 equCab2 Horse Equus caballus mammal perissodactyla 2409 equPrz1 Przewalski horse Equus przewalskii mammal perissodactyla 2409 cerSim1 White rhinoceros Ceratotherium simum mammal perissodactyla 2415 manPen1 Chinese pangolin Manis pentadactyla mammal pholidota 2416 felCat5 Cat Felis catus mammal carnivora 2418 panTig1 Amur tiger Panthera tigris altaica mammal carnivora 2425 musFur1 Ferret Mustela putorius furo mammal carnivora 2430 canFam3 Dog Canis lupus familiaris mammal carnivora 2437 canLup1 Gray wolf Canis lupus mammal carnivora 2440 camFer1 Bactrian camel Camelus ferus mammal carnivora 2450 ailMel1 Panda Ailuropoda melanoleuca mammal carnivora 2460 ursMar1 Polar bear Ursus maritimus mammal carnivora 2460 odoRosDiv1 Pacific walrus Odobenus rosmarus divergens mammal carnivora 2470 lepWed1 Weddell seal Leptonychotes weddellii mammal carnivora 2480 myoBra1 Brandt's myotis (bat) Myotis brandtii mammal chiroptera 2500 myoDav1 David's myotis (bat) Myotis davidii mammal chiroptera 2510 -myoLuc2 Microbat Myotis lucifugus mammal chiroptera 2514 +myoLuc2 Little brown bat Myotis lucifugus mammal chiroptera 2514 rhiFer1 Greater horseshoe bat Rhinolophus ferrumequinum mammal chiroptera 2516 eptFus1 Big brown bat Eptesicus fuscus mammal chiroptera 2517 eidHel1 Straw colored fruit bat Eidolon helvum mammal chiroptera 2518 pteVam1 Megabat Pteropus vampyrus mammal chiroptera 2520 pteAle1 Black flying-fox Pteropus alecto mammal chiroptera 2530 megLyr1 Indian false vampire Megaderma lyra mammal chiroptera 2540 ptePar1 Parnell's mustached bat Pteronotus parnellii mammal chiroptera 2550 eriEur2 Hedgehog Erinaceus europaeus mammal insectivora 2569 eriEur1 Hedgehog Erinaceus europaeus mammal insectivora 2570 sorAra2 Shrew Sorex araneus mammal insectivora 2579 sorAra1 Shrew Sorex araneus mammal insectivora 2580 conCri1 Star-nosed mole Condylura cristata mammal insectivora 2590 loxAfr3 Elephant Loxodonta africana mammal afrotheria 3098 eleEdw1 Cape elephant shrew Elephantulus edwardii mammal afrotheria 3110 chrAsi1 Cape golden mole Chrysochloris asiatica mammal afrotheria 3120 oryAfe1 Aardvark Orycteropus afer mammal afrotheria 3130 proCap1 Rock hyrax Procavia capensis mammal afrotheria 3350 echTel2 Tenrec Echinops telfairi mammal afrotheria 3369 triMan1 Manatee Trichechus manatus latirostris mammal afrotheria 3380 dasNov3 Armadillo Dasypus novemcinctus mammal xenarthra 3459 choHof1 Sloth Choloepus hoffmanni mammal xenarthra 3480 monDom5 Opossum Monodelphis domestica mammal mammal 3540 sarHar1 Tasmanian devil Sarcophilus harrisii mammal mammal 3590 macEug2 Wallaby Macropus eugenii mammal mammal 3610 ornAna1 Platypus Ornithorhynchus anatinus mammal mammal 3650 falChe1 Saker falcon Falco cherrug vertebrate aves 3660 falPer1 Peregrine falcon Falco peregrinus vertebrate aves 3670 colLiv1 Rock pigeon Columba livia vertebrate aves 3680 ficAlb2 Collared flycatcher Ficedula albicollis vertebrate aves 3689 ficAlb1 Collared flycatcher Ficedula albicollis vertebrate aves 3690 amaVit1 Puerto Rican parrot Amazona vittata vertebrate aves 4310 araMac1 Scarlet macaw Ara macao vertebrate aves 4320 galGal4 Chicken Gallus gallus vertebrate aves 4349 cotJap1 Japanese quail Coturnix japonica vertebrate aves 4353 chaVoc2 Killdeer Charadrius vociferus vertebrate aves 4354 chaVoc1 Killdeer Charadrius vociferus vertebrate aves 4354 cucCan1 Common cuckoo Cuculus canorus vertebrate aves 4355 apaVit1 Bar tailed trogon Apaloderma vittatum vertebrate aves 4355 anaPla1 Mallard duck Anas platyrhynchos vertebrate aves 4357 bucRhi1 Rhinoceros hornbill Buceros rhinoceros silvestris vertebrate aves 4358 pseHum1 Tibetan ground jay Pseudopodoces humilis vertebrate aves 4358 zonAlb1 White-throated sparrow Zonotrichia albicollis vertebrate aves 4359 melGal1 Turkey Meleagris gallopavo vertebrate aves 4360 strCam1 Ostrich Struthio camelus vertebrate aves 4363 tinGut2 White throated tinamou Tinamus guttatus vertebrate aves 4363 tinGut1 White throated tinamou Tinamus guttatus vertebrate aves 4363 acaChl1 Rifleman Acanthisitta chloris vertebrate aves 4363 aptFor1 Emperor penguin Aptenodytes forsteri vertebrate aves 4363 aquChr1 Golden eagle Aquila chrysaetos canadensis vertebrate aves 4363 halLeu1 Bald eagle Haliaeetus leucocephalus vertebrate aves 4363 calAnn1 Anna's hummingbird Calypte anna vertebrate aves 4363 capCar1 Chuck-will's-widow Caprimulgus carolinensis vertebrate aves 4363 carCri1 Red-legged seriema Cariama cristata vertebrate aves 4363 chlUnd1 Houbara bustard Chlamydotis undulata macqueenii vertebrate aves 4363 colStr1 Speckled mousebird Colius striatus vertebrate aves 4363 corBra1 American crow Corvus brachyrhynchos vertebrate aves 4363 corCor1 Hooded crow Corvus cornix cornix vertebrate aves 4363 nipNip1 Crested ibis Nipponia nippon vertebrate aves 4363 egrGar1 Little egret Egretta garzetta vertebrate aves 4363 eurHel1 Sunbittern Eurypyga helias vertebrate aves 4363 balPav1 Crowned crain Balearica pavonina gibbericeps vertebrate aves 4363 fulGla1 Northern fulmar Fulmarus glacialis vertebrate aves 4363 gavSte1 Red-throated loon Gavia stellata vertebrate aves 4363 halAlb1 White-tailed eagle Haliaeetus albicilla vertebrate aves 4363 lepDis1 Cuckoo roller Leptosomus discolor vertebrate aves 4363 manVit2 Golden-collared manakin Manacus vitellinus vertebrate aves 4363 manVit1 Golden-collared manakin Manacus vitellinus vertebrate aves 4363 merNub1 Northern carmine bee-eater Merops nubicus vertebrate aves 4363 mesUni1 Brown roatelo Mesitornis unicolor vertebrate aves 4363 opiHoa1 Hoatzin Opisthocomus hoazin vertebrate aves 4363 tauEry1 Red crested turaco Tauraco erythrolophus vertebrate aves 4363 pelCri1 Dalmatian pelican Pelecanus crispus vertebrate aves 4363 phaCar1 Great cormorant Phalacrocorax carbo vertebrate aves 4363 phaLep1 White-tailed tropicbird Phaethon lepturus vertebrate aves 4363 phoRub1 American flamingo Phoenicopterus ruber ruber vertebrate aves 4363 picPub1 Downy woodpecker Picoides pubescens vertebrate aves 4363 pteGut1 Yellow-throated sandgrouse Pterocles gutturalis vertebrate aves 4363 pygAde1 Adelie penguin Pygoscelis adeliae vertebrate aves 4363 tytAlb1 Barn owl Tyto alba vertebrate aves 4363 taeGut2 Zebra finch Taeniopygia guttata vertebrate aves 4369 taeGut1 Zebra finch Taeniopygia guttata vertebrate aves 4370 serCan1 Canary Serinus canaria vertebrate aves 4372 geoFor1 Medium ground finch Geospiza fortis vertebrate aves 4373 melUnd1 Budgerigar Melopsittacus undulatus vertebrate aves 4375 pytBiv1 Burmese python Python bivittatus vertebrate sauria 4378 allMis1 American alligator Alligator mississippiensis vertebrate sauria 4380 allSin1 Chinese alligator Alligator sinensis vertebrate sauria 4382 croPor0 Crocodile Crocodylus porosus vertebrate sauria 4385 croPor1 Crocodile Crocodylus porosus vertebrate sauria 4385 gavGan0 Gharial Gavialis gangeticus vertebrate sauria 4387 gavGan1 Gharial Gavialis gangeticus vertebrate sauria 4387 anoCar2 Lizard Anolis carolinensis vertebrate sauria 4390 pytMolBiv1 Burmese python Python molurus bivittatus vertebrate sauria 4392 cheMyd1 Green seaturtle Chelonia mydas vertebrate testudines 4395 pelSin1 Chinese softshell turtle Pelodiscus sinensis vertebrate testudines 4400 apaSpi1 Spiny softshell turtle Apalone spinifera vertebrate testudines 4403 chrPic2 Painted turtle Chrysemys picta bellii vertebrate testudines 4404 chrPic1 Painted turtle Chrysemys picta bellii vertebrate testudines 4405 xenTro7 Frog (X. tropicalis) Xenopus tropicalis vertebrate tetrapoda 4439 xenTro3 Frog (X. tropicalis) Xenopus tropicalis vertebrate tetrapoda 4440 xenTro1 Frog (X. tropicalis) Xenopus tropicalis vertebrate tetrapoda 4460 latCha1 Coelacanth Latimeria chalumnae vertebrate sarcopterygii 4465 tetNig2 Tetraodon Tetraodon nigroviridis vertebrate tetraodontidae 4599 fr3 Fugu Takifugu rubripes vertebrate tetraodontidae 4628 takFla1 Yellowbelly pufferfish Takifugu flavidus vertebrate tetraodontidae 4640 hapBur1 Burton's mouthbreeder Haplochromis burtoni vertebrate percomorpha 4650 dicLab1 European sea bass Dicentrarchus labrax vertebrate percomorpha 4660 stePar1 Bicolor damselfish Stegastes partitus vertebrate percomorpha 4660 mayZeb1 Zebra mbuna Maylandia zebra vertebrate percomorpha 4660 punNye1 Pundamilia nyererei Pundamilia nyererei vertebrate percomorpha 4665 oreNil2 Nile tilapia Oreochromis niloticus vertebrate percomorpha 4669 neoBri1 Princess of Burundi Neolamprologus brichardi vertebrate percomorpha 4680 cynSem1 Tongue sole Cynoglossus semilaevis vertebrate percomorpha 4690 notCor1 Black rockcod Notothenia coriiceps vertebrate percomorpha 4692 sebNig1 Tiger rockfish Sebastes nigrocinctus vertebrate percomorpha 4693 sebRub1 Flag rockfish Sebastes rubrivinctus vertebrate percomorpha 4696 gasAcu1 Stickleback Gasterosteus aculeatus vertebrate percomorpha 4700 oryLat2 Medaka Oryzias latipes vertebrate percomorpha 4729 cypVar1 Sheepshead minnow Cyprinodon variegatus vertebrate percomorpha 4637 xipMac1 Southern platyfish Xiphophorus maculatus vertebrate percomorpha 4740 poeRet1 guppy Poecilia reticulata vertebrate percomorpha 4743 poeFor1 Amazon molly Poecilia formosa vertebrate percomorpha 4745 esoLuc1 Northern pike Esox lucius vertebrate neopterygii 4748 gadMor1 Atlantic cod Gadus morhua vertebrate neoteleostei 4750 angJap1 Japanese eel Anguilla japonica vertebrate teleostei 4770 danRer7 Zebrafish Danio rerio vertebrate teleostei 4774 astMex1 Mexican tetra (cavefish) Astyanax mexicanus vertebrate teleostei 4790 lepOcu1 Spotted gar Lepisosteus oculatus vertebrate neopterygii 4793 calMil1 Elephant shark Callorhinchus milii vertebrate chondrichthyes 4796 petMar2 Lamprey Petromyzon marinus vertebrate hyperoartia 4799 letCam1 Arctic lamprey Lethenteron camtschaticum vertebrate hyperoartia 4820 aplCal1 Sea hare Aplysia californica gastropod gastropod 7820 braFlo2 Lanclet Branchiostoma floridae deuterostomia chordata 7989 braFlo1 Lanclet Branchiostoma floridae deuterostomia chordata 7990 dm6 D. melanogaster Drosophila melanogaster insect drosophila 9060 droSim1 D. simulans Drosophila simulans insect drosophila 9140 droSec1 D. sechellia Drosophila sechellia insect drosophila 9190 droYak3 D. yakuba Drosophila yakuba insect drosophila 9230 droYak2 D. yakuba Drosophila yakuba insect drosophila 9240 droBia2 D. biarmipes Drosophila biarmipes insect drosophila 9260 droSuz1 D. suzukii Drosophila suzukii insect drosophila 9265 droBip2 D. bipectinata Drosophila bipectinata insect drosophila 9270 droEre2 D. erecta Drosophila erecta insect drosophila 9280 droAna3 D. ananassae Drosophila ananassae insect drosophila 9320 droTak2 D. takahashii Drosophila takahashii insect drosophila 9326 droEle2 D. elegans Drosophila elegans insect drosophila 9330 droKik2 D. kikkawai Drosophila kikkawai insect drosophila 9334 droFic2 D. ficusphila Drosophila ficusphila insect drosophila 9338 droEug2 D. eugracilis Drosophila eugracilis insect drosophila 9342 droRho2 D. rhopaloa Drosophila rhopaloa insect drosophila 9346 droPse3 D. pseudoobscura Drosophila pseudoobscura insect drosophila 9359 dp4 D. pseudoobscura Drosophila pseudoobscura insect drosophila 9360 droPer1 D. persimilis Drosophila persimilis insect drosophila 9440 droMir2 D. miranda Drosophila miranda insect drosophila 9450 droWil2 D. willistoni Drosophila willistoni insect drosophila 9489 droWil1 D. willistoni Drosophila willistoni insect drosophila 9490 droAlb1 D. albomicans Drosophila albomicans insect drosophila 9500 droVir3 D. virilis Drosophila virilis insect drosophila 9520 droMoj3 D. mojavensis Drosophila mojavensis insect drosophila 9570 droGri2 D. grimshawi Drosophila grimshawi insect drosophila 9595 musDom2 M. domestica Musca domestica insect diptera 9620 anoGam1 A. gambiae Anopheles gambiae insect diptera 9640 apiMel4 A. mellifera Apis mellifera insect hymenoptera 9654 apiMel3 A. mellifera Apis mellifera insect hymenoptera 9655 apiMel2 A. mellifera Apis mellifera insect hymenoptera 9656 apiMel1 A. mellifera Apis mellifera insect hymenoptera 9657