GenArk taxonomy - CCGP

View list of species as table for CCGP

126 accessions

Eukaryota

Opisthokonta

Melanerpes formicivorus

•Melanerpes formicivorus(acorn woodpecker (bairdi alternate hap 2022))(info)GCA_026170555.1

•Melanerpes formicivorus(acorn woodpecker (bairdi primary hap 2022))(info)GCA_026170545.1

•Artemisiospiza belli(sage sparrow (canescens MVZ Bird 192114 alternate hap 2022))(info)GCA_021966175.1

•Artemisiospiza belli(sage sparrow (canescens MVZ Bird 192114 primary hap 2022))(info)GCA_021963965.1

Passerculus

Passerculus sandwichensis

Passerculus sandwichensis alaudinus

•Passerculus sandwichensis alaudinus(Savannah sparrow (FMNH 499929 alternate hap 2022))(info)GCA_022578375.1

•Passerculus sandwichensis alaudinus(Savannah sparrow (FMNH 499929 primary hap 2022))(info)GCA_022577445.1

Melospiza

Melospiza melodia

•Melospiza melodia(song sparrow (gouldii PMB2087b alternate hap 2022))(info)GCA_022749775.1

•Melospiza melodia(song sparrow (gouldii PMB2087b primary hap 2022))(info)GCA_022749695.1

•Cyanocitta stelleri(Steller's jay (frontalis alternate hap 2022))(info)GCA_026168045.1

•Cyanocitta stelleri(Steller's jay (frontalis primary hap 2022))(info)GCA_026167965.1

Aphelocoma

Aphelocoma californica

•Aphelocoma californica(western scrub-jay (CA MVZ Bird 193978 2023))(info)GCA_028536645.1

•Aphelocoma californica(western scrub-jay (CA MVZ Bird 193978 2023))(info)GCA_028536675.1

•Agelaius tricolor(tricolored blackbird (1412-34295 alternate hap 2022))(info)GCA_023055385.1

•Agelaius tricolor(tricolored blackbird (1412-34295 primary hap 2022))(info)GCA_023055355.1

Parulidae

Setophaga

Setophaga petechia

•Setophaga petechia(yellow warbler (LACM:Birds122168 alternate hap 2022))(info)GCA_024372515.1

•Setophaga petechia(yellow warbler (LACM:Birds122168 primary hap 2022))(info)GCA_024362935.1

Sylvioidea

Sylviidae

Sylviidae incertae sedis

Chamaea

Chamaea fasciata

•Chamaea fasciata(wrentit (frontalis MVZ Bird 193981 alternate hap 2023))(info)GCA_029207785.1

•Chamaea fasciata(wrentit (frontalis MVZ Bird 193981 primary hap 2023))(info)GCA_029207755.1

Gruiformes

Rallidae

Laterallus

Laterallus jamaicensis

Laterallus jamaicensis coturniculus

•Laterallus jamaicensis coturniculus(California black rail (168171201 alternate hap 2022))(info)GCA_022605925.1

•Laterallus jamaicensis coturniculus(California black rail (168171201 primary hap 2022))(info)GCA_022605575.1

Rallus

Rallus limicola

•Rallus limicola(Virginia rail (171378401 alternate hap 2022))(info)GCA_022605895.1

•Rallus limicola(Virginia rail (171378401 primary hap 2022))(info)GCA_022605955.1

Callipepla californica

Callipepla californica brunnescens

•Callipepla californica brunnescens(California quail (MVZ:Bird:193975 alternate hap 2022))(info)GCA_023055725.1

•Callipepla californica brunnescens(California quail (MVZ:Bird:193975 primary hap 2022))(info)GCA_023055505.1

•Actinemys marmorata(Northwestern pond turtle (WTP2003 alternate hap 2022))(info)GCA_022086895.1

•Actinemys marmorata(Northwestern pond turtle (WTP2003 primary hap 2022))(info)GCA_022086475.1

Actinemys pallida

•Actinemys pallida(Southwestern pond turtle (HBS135687 alternate hap 2022))(info)GCA_023634275.1

•Actinemys pallida(Southwestern pond turtle (HBS135687 primary hap 2022))(info)GCA_023634205.1

Phrynosoma blainvillii

•Phrynosoma blainvillii(Blainville's horned lizard (alternate hap 2022))(info)GCA_026167975.1

•Phrynosoma blainvillii(Blainville's horned lizard (primary hap 2022))(info)GCA_026167985.1

Sceloporus

Sceloporus occidentalis

•Sceloporus occidentalis(western fence lizard (IW3139 2022))(info)GCA_023333635.1

•Sceloporus occidentalis(western fence lizard (IW3139 primary hap 2022))(info)GCA_023333645.1

•Arizona elegans(California glossy snake (A.elegans occidentalis HBS 135684 alternate hap 2022))(info)GCA_022578425.1

•Arizona elegans(California glossy snake (A.elegans occidentalis HBS 135684 primary hap 2022))(info)GCA_022577455.1

Pituophis

Pituophis catenifer

Pituophis catenifer annectens

•Pituophis catenifer annectens(gopher snake (HBS135680 alternate hap 2023))(info)GCA_029215685.1

•Pituophis catenifer annectens(gopher snake (HBS135680 primary hap 2023))(info)GCA_029215655.1

Natricinae

Thamnophis

Thamnophis sirtalis

Thamnophis sirtalis fitchi

•Thamnophis sirtalis fitchi(valley gartersnake (HBS 135685 alternate hap 2023))(info)GCA_029207655.1

•Thamnophis sirtalis fitchi(valley gartersnake (HBS 135685 primary hap 2023))(info)GCA_029207665.1

Dipsadidae

Diadophis

Diadophis punctatus

Diadophis punctatus similis

•Diadophis punctatus similis(Ringneck snake (HBS135679 primary hap 2022))(info)GCA_023053685.1

•Diadophis punctatus similis(San Diego ringneck snake (HBS135679 alternate hap 2022))(info)GCA_023053665.1

•Crotalus helleri(Southern Pacific rattlesnake (HBS135844 alternate hap 2022))(info)GCA_024509165.1

•Crotalus helleri(Southern Pacific rattlesnake (HBS135844 primary hap 2022))(info)GCA_024509115.1

•Charina bottae(northern rubber boa (HBS 135849 alternate hap 2022))(info)GCA_023362785.1

•Charina bottae(northern rubber boa (HBS 135849 primary hap 2022))(info)GCA_023362775.1

•Anniella stebbinsi(San Diegan legless lizard (HBS135921 alternate hap 2023))(info)GCA_029215795.1

•Anniella stebbinsi(San Diegan legless lizard (HBS135921 primary hap 2023))(info)GCA_029215775.1

Anguidae

Elgaria

Elgaria multicarinata

Elgaria multicarinata webbii

•Elgaria multicarinata webbii(San Diego alligator lizard (HBS135686 alternate hap 2022))(info)GCA_023053675.1

•Elgaria multicarinata webbii(San Diego alligator lizard (HBS135686 primary hap 2022))(info)GCA_023053635.1

Aspidoscelis tigris group

Aspidoscelis tigris

Aspidoscelis tigris stejnegeri

•Aspidoscelis tigris stejnegeri(San Diegan tiger whiptail (HBS 135688 alternate hap 2022))(info)GCA_023333555.1

•Aspidoscelis tigris stejnegeri(San Diegan tiger whiptail (HBS 135688 primary hap 2022))(info)GCA_023333525.1

Plestiodon gilberti rubricaudatus

•Plestiodon gilberti rubricaudatus(western red-tailed skink (HBS 135693 alternate hap 2022))(info)GCA_026170595.1

•Plestiodon gilberti rubricaudatus(western red-tailed skink (HBS 135693 primary hap 2022))(info)GCA_026170395.1

•Ursus americanus(American black bear (L20-20 alternate hap 2022))(info)GCA_024610745.1

•Ursus americanus(American black bear (L20-20 primary hap 2022))(info)GCA_024610735.1

Mirounga angustirostris

•Mirounga angustirostris(northern elephant seal (CCGP_5_RB_7025 alternate hap 2023))(info)GCA_029215635.1

•Mirounga angustirostris(northern elephant seal (CCGP_5_RB_7025 primary hap 2023))(info)GCA_029215605.1

•Lynx rufus(bobcat (Redwood Valley CCGP_SWC_20201006 alternate hap 2022))(info)GCA_022079275.1

•Lynx rufus(bobcat (Redwood Valley CCGP_SWC_20201006 primary hap 2022))(info)GCF_022079265.1

Puma

Puma concolor

•Puma concolor(puma (L17-30 alternate hap 2023))(info)GCA_028749965.1

•Puma concolor(puma (L17-30 primary hap 2023))(info)GCA_028749985.1

Corynorhinus townsendii

•Corynorhinus townsendii(Townsend's big-eared bat (haplotype 1 of 2 COTO_CA2020_CCGP 2022))(info)GCA_026230055.1

•Corynorhinus townsendii(Townsend's big-eared bat (haplotype 2 of 2 COTO_CA2020_CCGP 2022))(info)GCA_026230045.1

Myotis

Myotis yumanensis

•Myotis yumanensis(Yuma myotis (MYYU_CA2020_CCGP alternate hap 2023))(info)GCA_028536395.1

•Myotis yumanensis(Yuma myotis (MYYU_CA2020_CCGP primary hap 2023))(info)GCA_028538775.1

•Thomomys bottae(Botta's pocket gopher (bottae MVZ:Mamm:240275 alternate hap 2022))(info)GCA_024803775.1

•Thomomys bottae(Botta's pocket gopher (bottae MVZ:Mamm:240275 primary hap 2022))(info)GCA_024803745.1

Heteromyidae

Perognathinae

Perognathus

Perognathus longimembris

•Perognathus longimembris(little pocket mouse (longimembris alternate hap 2022))(info)GCA_024363435.1

•Perognathus longimembris(little pocket mouse (longimembris primary hap 2022))(info)GCA_024363575.1

Dipodomyinae

Dipodomys

Dipodomys merriami

•Dipodomys merriami(Merriam's kangaroo rat (MVZ:Mamm:240054 alternate hap 2022))(info)GCA_024711525.1

•Dipodomys merriami(Merriam's kangaroo rat (MVZ:Mamm:240054 primary hap 2022))(info)GCA_024711535.1

Microtus californicus

•Microtus californicus(California vole (kernensis MVZ Mamm 240107 primary hap 2023))(info)GCA_028537955.1

•Microtus californicus(California vole (kernensis MVZ Mamm 240107 alternate hap 2023))(info)GCA_028537755.1

Neotominae

Peromyscus

Peromyscus maniculatus

Peromyscus maniculatus sonoriensis

•Peromyscus maniculatus sonoriensis(North American deer mouse (MVZ:Mamm:240117 alternate hap 2022))(info)GCA_026167925.1

•Peromyscus maniculatus sonoriensis(North American deer mouse (MVZ:Mamm:240117 primary hap 2022))(info)GCA_026229955.1

•Spea hammondii(western spadefoot toad (HBS 135690 2023))(info)GCA_029215705.1

•Spea hammondii(western spadefoot toad (HBS 135690 2023))(info)GCA_029215755.1

•Gila orcuttii(arroyo chub (AC-1 alternate hap 2022))(info)GCA_026230005.1

•Gila orcuttii(arroyo chub (AC-1 primary hap 2022))(info)GCA_026230025.1

Ovalentaria incertae sedis

Embiotocidae

Embiotoca

Embiotoca jacksoni

•Embiotoca jacksoni(black perch (LCO1_2020_lvr alternate hap 2022))(info)GCA_022578405.1

•Embiotoca jacksoni(black perch (LCO1_2020_lvr primary hap 2022))(info)GCA_022577435.1

Semicossyphus pulcher

•Semicossyphus pulcher(California sheephead (SPU_LCO1_2020_fin alternate hap 2022))(info)GCA_022749735.1

•Semicossyphus pulcher(California sheephead (SPU_LCO1_2020_fin primary hap 2022))(info)GCA_022749685.1

Cebidichthys violaceus

•Cebidichthys violaceus(monkeyface prickleback (CVI_PGR_0920_01 alternate hap 2022))(info)GCA_023349535.1

•Cebidichthys violaceus(monkeyface prickleback (CVI_PGR_0920_01 primary hap 2022))(info)GCA_023349555.1

•Clinocottus analis(woolly sculpin (CAN_PGR_092001 alternate hap 2022))(info)GCA_023055415.1

•Clinocottus analis(woolly sculpin (CAN_PGR_092001 primary hap 2022))(info)GCA_023055335.1

Eucyclogobius newberryi

•Eucyclogobius newberryi(tidewater goby (DKJ021-1_F 2022))(info)GCA_026437355.1

•Eucyclogobius newberryi(tidewater goby (DKJ021-1_F 2022))(info)GCA_026437365.1

•Pisaster brevispinus(starfish (M0D059179O alternate hap 2022))(info)GCA_023634265.1

•Pisaster brevispinus(starfish (M0D059179O primary hap 2022))(info)GCA_023634235.1

•Hetaerina americana(American ruby spot damselfly (1083.01 alternate hap 2022))(info)GCA_022747625.1

•Hetaerina americana(American ruby spot damselfly (1083.01 primary hap 2022))(info)GCA_022747635.1

•Camponotus vicinus(ant C.vicinus (PSW18456_S1 2022))(info)GCA_025532165.1

•Branchinecta lindahli(vernal pool fairy shrimp B.lindahli (BRLI_1 2022))(info)GCA_023053555.1

•Branchinecta lynchi(vernal pool fairy shrimp B.lynchi (BRLY_001 2022))(info)GCA_023053575.1

•Lepidurus packardi(vernal pool tadpole shrimp L.packardi (LEPA_1 2022))(info)GCA_023053545.1

Tetragnatha versicolor

•Tetragnatha versicolor(longjawed orb weaver (CCGP_RG_IND1 alternate hap 2022))(info)GCA_024610695.1

•Tetragnatha versicolor(longjawed orb weaver (CCGP_RG_IND1 primary hap 2022))(info)GCA_024610705.1

•Haliotis cracherodii(black abalone (W230 alternate hap 2022))(info)GCA_022045225.1

•Haliotis cracherodii(black abalone (W230 primary hap 2022))(info)GCA_022045235.1

Haliotis rufescens

•Haliotis rufescens(red abalone (VD_foot alternate hap 2022))(info)GCA_023055495.1

•Haliotis rufescens(red abalone (VD_foot primary hap 2022))(info)GCF_023055435.1

Mytilus californianus

•Mytilus californianus(California mussel (2022))(info)GCF_021869535.1

•Mytilus californianus(California mussel (M0D057914Y alternate hap 2022))(info)GCA_021869935.1

•Anthopleura sola(starburst anemone (CCGP_MDBC_AS_20200803 alternate hap 2022))(info)GCA_023349385.1

•Anthopleura sola(starburst anemone (CCGP_MDBC_AS_20200803 primary hap 2022))(info)GCA_023349425.1

Umbellularia californica

•Umbellularia californica(bay (USA: Berkeley CA var. californica CCGP_DODD_UMBCAL_S1 alternate hap 2023))(info)GCA_028538565.1

•Umbellularia californica(bay (USA: Berkeley CA var. californica CCGP_DODD_UMBCAL_S1 primary hap 2023))(info)GCA_028534965.1

Arctostaphylos glauca

•Arctostaphylos glauca(bigberry manzanita (GLNDR_RDG_Rd-6 2022))(info)GCA_019985065.2

•Arctostaphylos glauca(bigberry manzanita (GLNDR_RDG_Rd-6 alternate hap 2021))(info)GCA_019985075.1

Polemoniaceae

Linanthus

Linanthus parryae

•Linanthus parryae(sandblossoms (Phelan CA IGA184 alternate hap 2022))(info)GCA_023055565.1

•Linanthus parryae(sandblossoms (Phelan CA IGA184 primary hap 2022))(info)GCA_023055425.1

•Populus trichocarpa(black cottonwood (Ptri.A.LA.226.w1 alternate hap 2023))(info)GCA_028534865.1

•Populus trichocarpa(black cottonwood (Ptri.A.LA.226.w1 primary hap 2023))(info)GCA_028534895.1

•Juglans californica(California black walnut (Jcal.S.LA.6 alternate hap 2022))(info)GCA_023349545.1

•Juglans californica(California black walnut (Jcal.S.LA.6 primary hap 2022))(info)GCA_023349395.1

Fagaceae

Quercus

Quercus berberidifolia

•Quercus berberidifolia(California scrub oak (Qber.S.LA.60 alternate hap 2023))(info)GCA_028535905.1

•Quercus berberidifolia(California scrub oak (Qber.S.LA.60 primary hap 2023))(info)GCA_028535815.1

Quercus wislizeni

•Quercus wislizeni(interior live oak (QUWIS_CCGP_1 alternate hap 2022))(info)GCA_023055485.1

•Quercus wislizeni(interior live oak (QUWIS_CCGP_1 primary hap 2022))(info)GCA_023055345.1

Quercus tomentella

•Quercus tomentella(island oak (RSA801373 alternate hap 2023))(info)GCA_028535165.1

•Quercus tomentella(island oak (RSA801373 primary hap 2023))(info)GCA_028535515.1

Heteromeles arbutifolia

•Heteromeles arbutifolia(toyon (HeAr 88 alternate hap 2022))(info)GCA_024363235.1

•Heteromeles arbutifolia(toyon (HeAr 88 primary hap 2022))(info)GCA_024362995.1

•Aquilegia eximia(Van Houtte's columbine (alt alternate hap PFEx6 2022))(info)GCA_023053535.1

•Aquilegia eximia(Van Houtte's columbine (PFEx6 primary hap 2022))(info)GCA_023053565.1