Data Overview

 
 Genes : 206474 mRNAs
SourceNumber of mRNAs
Ca. L. solanacearum CLso-ZC1 genome0
Ca. L. asiaticus gxpsy genome0
Citrus sinensis genome v1.0 (JGI)46147
Citrus clementina genome v1.0 (JGI)33929
Ca. L. asiaticus psy62 genome0
L. crescens BT-0 genome0
Citrus sinensis genome v1.1 (JGI)46147
Citrus clementina genome v0.9 (JGI)35976
Ca. L. africanus PTSAPSY genome0
Citrus sinensis genome v2.0 (HZAU)44275
Ca. L. americanus Sao Paulo genome0
Ca. L. asiaticus A4 genome0
L. crescens BT-1 genome0
Ca. L. asiaticus Ishi-1 genome0
 
 Genomes
 
 Germplasm : 1252 germplasm
 
 Citroncirus x paradisi x trifoliata : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus aurantifolia : 9
Germplasm TypeNumber of germplasm
cultivar8
breeding_research_material1
 
 Citrus aurantiifolia : 23
Germplasm TypeNumber of germplasm
wild_unimproved17
cultivar6
 
 Citrus aurantium : 84
Germplasm TypeNumber of germplasm
cultivar61
wild_unimproved20
breeding_research_material3
 
 Citrus bergamia : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus celebica : 2
Germplasm TypeNumber of germplasm
cultivar2
 
 Citrus clementina : 10
Germplasm TypeNumber of germplasm
cultivar9
breeding_research_material1
 
 Citrus deliciosa : 6
Germplasm TypeNumber of germplasm
cultivar6
 
 Citrus depressa : 2
Germplasm TypeNumber of germplasm
wild_unimproved1
cultivar1
 
 Citrus grandis : 51
Germplasm TypeNumber of germplasm
cultivar44
population4
breeding_research_material3
 
 Citrus hassaku : 3
Germplasm TypeNumber of germplasm
cultivar3
 
 Citrus hongheensis : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus hybrid : 4
Germplasm TypeNumber of germplasm
wild_unimproved3
cultivar1
 
 Citrus hystrix : 4
Germplasm TypeNumber of germplasm
cultivar3
wild_unimproved1
 
 Citrus ichangensis : 2
Germplasm TypeNumber of germplasm
cultivar2
 
 Citrus indica : 3
Germplasm TypeNumber of germplasm
breeding_research_material1
cultivar1
wild_unimproved1
 
 Citrus iyo : 1
Germplasm TypeNumber of germplasm
breeding_research_material1
 
 Citrus jambhiri : 3
Germplasm TypeNumber of germplasm
cultivar2
wild_unimproved1
 
 Citrus kinokuni : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus latifolia : 2
Germplasm TypeNumber of germplasm
cultivar2
 
 Citrus latipes : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus limettioides : 3
Germplasm TypeNumber of germplasm
cultivar3
 
 Citrus limon : 69
Germplasm TypeNumber of germplasm
cultivar44
wild_unimproved23
breeding_research_material2
 
 Citrus limonia : 18
Germplasm TypeNumber of germplasm
cultivar18
 
 Citrus limonimedica : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus lycopersicaformis : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus macrophylla : 3
Germplasm TypeNumber of germplasm
cultivar3
 
 Citrus madurensis : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus maxima : 62
Germplasm TypeNumber of germplasm
wild_unimproved35
cultivar25
breeding_research_material2
 
 Citrus medica : 47
Germplasm TypeNumber of germplasm
breeding_research_material19
cultivar15
wild_unimproved13
 
 Citrus meyeri : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus micrantha : 2
Germplasm TypeNumber of germplasm
cultivar2
 
 Citrus mitis : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus nobilis : 2
Germplasm TypeNumber of germplasm
cultivar2
 
 Citrus paradisi : 54
Germplasm TypeNumber of germplasm
cultivar50
breeding_research_material2
wild_unimproved2
 
 Citrus reshni : 3
Germplasm TypeNumber of germplasm
cultivar2
breeding_research_material1
 
 Citrus reticulata : 158
Germplasm TypeNumber of germplasm
cultivar88
wild_unimproved52
breeding_research_material14
population4
 
 Citrus sinensis : 191
Germplasm TypeNumber of germplasm
cultivar174
breeding_research_material14
wild_unimproved3
 
 Citrus spp. : 295
Germplasm TypeNumber of germplasm
breeding_research_material106
population106
cultivar74
wild_unimproved9
 
 Citrus sunki : 4
Germplasm TypeNumber of germplasm
cultivar4
 
 Citrus tachibana : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus taiwanica : 3
Germplasm TypeNumber of germplasm
cultivar3
 
 Citrus tamurana : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus tangerina : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus tankan : 1
Germplasm TypeNumber of germplasm
wild_unimproved1
 
 Citrus temple : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus trifoliata : 15
Germplasm TypeNumber of germplasm
cultivar8
population6
breeding_research_material1
 
 Citrus unshiu : 13
Germplasm TypeNumber of germplasm
cultivar9
breeding_research_material4
 
 Citrus volkameriana : 4
Germplasm TypeNumber of germplasm
cultivar3
population1
 
 Citrus webberi : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus x clementina x tangelo : 1
Germplasm TypeNumber of germplasm
population1
 
 Citrus x paradisi : 1
Germplasm TypeNumber of germplasm
cultivar1
 
 Citrus x reticulata x temple : 2
Germplasm TypeNumber of germplasm
breeding_research_material2
 
 Citrus x tangelo : 2
Germplasm TypeNumber of germplasm
cultivar2
 
 Poncirus trifoliata : 32
Germplasm TypeNumber of germplasm
cultivar14
population7
wild_unimproved7
breeding_research_material4
 
 X Citroncirus spp. : 32
Germplasm TypeNumber of germplasm
population28
cultivar4
 
 X Citroncirus x limonia x trifoliata : 1
Germplasm TypeNumber of germplasm
breeding_research_material1
 
 X Citrus spp. : 9
Germplasm TypeNumber of germplasm
population7
cultivar1
breeding_research_material1
 
 X Citrus x paradisi : 1
Germplasm TypeNumber of germplasm
population1
 
 Maps : 102 maps
 
 Citrus aurantium : 2
Map TypeNumber of maps
genetic2
 
 Citrus clementina : 2
Map TypeNumber of maps
genetic2
 
 Citrus grandis : 7
Map TypeNumber of maps
genetic4
physical3
 
 Citrus limonia : 2
Map TypeNumber of maps
genetic2
 
 Citrus maxima : 3
Map TypeNumber of maps
genetic3
 
 Citrus reshni : 4
Map TypeNumber of maps
Genetic3
genetic1
 
 Citrus reticulata : 2
Map TypeNumber of maps
genetic2
 
 Citrus sinensis : 4
Map TypeNumber of maps
genetic4
 
 Citrus spp. : 41
Map TypeNumber of maps
genetic38
Genetic3
 
 Citrus trifoliata : 11
Map TypeNumber of maps
genetic11
 
 Citrus volkameriana : 1
Map TypeNumber of maps
genetic1
 
 Poncirus trifoliata : 7
Map TypeNumber of maps
genetic4
Genetic3
 
 X Citroncirus spp. : 15
Map TypeNumber of maps
genetic15
 
 X Citrus x clementina x tangelo : 1
Map TypeNumber of maps
genetic1
 
 Markers : 43443 markers
 
 Brassica oleracea : 246
Marker TypeNumber of markers
SRAP246
 
 Buchloe dactyloides : 10
Marker TypeNumber of markers
STS10
 
 Citroncirus spp. : 10
Marker TypeNumber of markers
RFLP10
 
 Citroncirus x paradisi x trifoliata : 1
Marker TypeNumber of markers
SSR1
 
 Citrus aurantifolia : 15
Marker TypeNumber of markers
PCR Primer7
PCR Marker7
genetic markers1
 
 Citrus aurantiifolia : 7
Marker TypeNumber of markers
PCR Primer7
 
 Citrus aurantium : 107
Marker TypeNumber of markers
SSR37
SCAR22
IRAP20
EST10
RAPD8
genetic marker5
SRAP5
 
 Citrus clementina : 2014
Marker TypeNumber of markers
SNP1532
SSR320
RAPD53
Indel47
genetic marker27
Gene marker11
gene marker8
AFLP8
PCR Primer8
 
 Citrus grandis : 7857
Marker TypeNumber of markers
SSR6275
SNP1582
 
 Citrus iyo : 15
Marker TypeNumber of markers
PCR Primer15
 
 Citrus jambhiri : 24
Marker TypeNumber of markers
RFLP19
genetic marker3
SSR1
PCR Primer1
 
 Citrus japonica : 10
Marker TypeNumber of markers
genetic marker10
 
 Citrus junos : 11
Marker TypeNumber of markers
PCR Primer10
SNP1
 
 Citrus limon : 8
Marker TypeNumber of markers
genetic markers7
SNP1
 
 Citrus limonia : 22
Marker TypeNumber of markers
RAPD14
RFLP5
Isozyme2
gene marker1
 
 Citrus maxima : 116
Marker TypeNumber of markers
RAPD93
SSR11
SCAR6
CAPS3
SNP2
STS1
 
 Citrus maxima x trifoliata : 9
Marker TypeNumber of markers
RAPD9
 
 Citrus medica : 35
Marker TypeNumber of markers
Genetic marker27
EST6
SSR1
genetic marker1
 
 Citrus nobilis : 12
Marker TypeNumber of markers
RFLP12
 
 Citrus paradisi : 31
Marker TypeNumber of markers
PCR Primer25
genetic marker4
gene marker2
 
 Citrus reshni : 33
Marker TypeNumber of markers
SSR33
 
 Citrus reticulata : 484
Marker TypeNumber of markers
SNP293
SSR143
PCR Primer24
PCR Primers22
SCAR2
 
 Citrus reticulata x temple : 1
Marker TypeNumber of markers
SSR1
 
 Citrus sinensis : 1405
Marker TypeNumber of markers
SSR958
PCR Primer163
gene marker96
genetic marker40
genetic markers37
PCR marker30
PCR primer17
Gene marker14
cDNA-AFLP13
RAPD13
gene markers11
Indel5
Gene markers5
SNP3
 
 Citrus spp. : 30241
Marker TypeNumber of markers
SNP26429
SSR1013
DArTseq648
CAPS439
RAPD306
SRAP274
genetic marker240
fAFLP119
ISSR102
PCR Primer88
EST-SSR67
RFLP66
Gene marker66
STS56
SCAR45
EST-STMS41
Indel40
IRAP34
Genetic marker26
SNP;CAPS21
gene marker20
CAPS;SNP15
genetic primer12
SCoT9
PCR9
LAMP marker8
POPG7
gene markers7
RBC6
PCR-RFLP6
SSAP4
RACE Primer4
RGC3
genetic markers3
Isozyme2
STMS2
STS;SNP1
isozyme1
SNP;STS1
RGA1
 
 Citrus sunki : 62
Marker TypeNumber of markers
RAPD62
 
 Citrus trifoliata : 250
Marker TypeNumber of markers
RAPD182
SSR28
SCAR27
RGC3
RFLP3
IRAP2
CAPS2
ISSR2
Isozyme1
 
 Citrus unshiu : 31
Marker TypeNumber of markers
gene marker9
PCR marker7
genetic markers5
Indel3
PCR Primer2
Gene marker2
SNP2
SSR1
 
 Citrus volkameriana : 17
Marker TypeNumber of markers
genetic marker8
RAPD7
SSR2
 
 Citrus x paradisi : 7
Marker TypeNumber of markers
SSR4
SNP3
 
 Citrus x reticulata x temple : 3
Marker TypeNumber of markers
SSR3
 
 Poncirus trifoliata : 132
Marker TypeNumber of markers
PCR markers49
PCR Primer30
Genetic marker11
genetic marker9
SSR6
EST5
gene marker5
RAPD4
SRAP3
gene markers3
Gene Primer3
Gene marker2
PCR1
IRAP1
 
 Prunus persica : 11
Marker TypeNumber of markers
Isozyme11
 
 Rutaceae spp. : 14
Marker TypeNumber of markers
SSR14
 
 X Citroncirus sp. : 1
Marker TypeNumber of markers
STS1
 
 X Citroncirus spp. : 52
Marker TypeNumber of markers
SSR23
CAPS10
SCAR7
RAPD5
RFLP5
Isozyme2
 
 X Citroncirus x trifoliata x aurantium : 121
Marker TypeNumber of markers
SSR60
IRAP58
SCAR3
 
 X Citroncirus x trifoliata x reshni : 18
Marker TypeNumber of markers
SCAR18
 
 QTL/MTL : 481 QTLs and 5 MTLs for 163 agronomic traits
Trait CategoryNumber of QTLsNumber of MTLs
9-cis-violaxanthin50
Acidity/soluble solid10
Acidity (total titratable acidity)50
All-trans-violaxanthin60
Anther Number10
Apomixis60
Citrus Tristeza Virus Resistance70
cold tolerance450
Control Fine Root Dry Weight30
Control Fine Root Dry Weight/ Control Total Weight Chloride20
Control Fine Root Na Accumulation20
Control Fine Roots Chloride/Potassium Accumulation Percentage10
Control Leaf Chloride10
Control Leaf Chloride/Potassium Accumulation Percentage10
Control Leaf (Cl)10
Control Leaf Gram per Meter Dry Weight30
Control Leaf Potassium Accumulation Percentage20
Control Net Growth70
Control Percentage Fine Roots Chloride10
Control Percentage Fine Roots Sodium30
Control Percentage Leaf Chloride20
Control Percentage Leaf Sodium10
Control Percentage Stem Chloride10
Control Percentage Stem Sodium20
Control Percentage Structural Roots Chloride40
Control Percentage Structural Roots Sodium20
Control Stem Chloride10
Control Stem Dry Weight30
Control Stem Gram per Meter Dry Weight30
Control Stem Potassium Accumulation Percentage10
Control Stem Sodium40
Control Structural Root (Cl)10
Control Structural Root Dry Weight10
Control Structural Root Gram per Meter Dry Weight60
Control Structural Roots Chloride20
Control Structural Roots Potassium Accumulation Percentage10
Control Structural Roots Sodium20
Control Total Dry Weight20
Control Total Growth50
Control Total Plant Chloride30
Control Total Plant Chloride/Sodium20
Control Total Plant Sodium30
Control Whole Plant Chloride/Potassium10
Control Whole Plant (Cl)10
Control Whole Plant (Cl/Na)10
Diameter (fruit10
Diameter (fruit)30
Ease of peeling10
Flavedo color space value a80
Flavedo color space value a/ b80
Flavedo color space value b80
Flavedo color space value L60
Fruit Segment10
Fruit weight60
Height (fruit)20
Height/width ratio10
Juice color space value a40
Juice color space value a/b50
Juice color space value b40
Juice color space value L10
Juice content20
Juice percentage10
Juvenility120
Leaf Length10
Leaf Width20
Lutein30
Number of fruits per box10
Number of seeds40
Petal Length10
Petal Number10
Petal Width10
Phytoene20
Phytophthora Gummosis Resistance30
resistance to Alternaria brown spot01
resistance to Citrus tristeza virus24
resistance to Phytophthora gummosis30
Saline Accumulation Leaf (Na)30
Saline Accumulation Stem (Na)30
Saline Accumulation Structural Root (Na)10
Salinized/Control Fine Root Gram per Meter Dry Weight10
Salinized/Control Leaf Dry Weight20
Salinized/Control Leaf Gram per Meter Dry Weight50
Salinized/Control Net Growth30
Salinized/Control Net Weight/ Salinized Percentage Structural Root Sodium10
Salinized/Control Stem Dry Weight20
Salinized/ Control Stem Gram per Meter Dry Weight20
Salinized/ Control Structural Roots Gram per Meter Dry Weight20
Salinized/Control Total Dry Weight10
Salinized/Control Total Gram per Meter Dry Weight10
Salinized/Control Total Growth10
Salinized Fine Root Dry Weight10
Salinized Fine Roots Chloride30
Salinized Fine Roots Chloride/Potassium Accumulation Percentage10
Salinized Fine Roots Gram per Meter Dry Weight30
Salinized Fine Roots Gram per Meter/Salinized Total Weight Chloride10
Salinized Fine Roots grams per Meter Dry Weight/Salinized Percentage Leaf Chloride20
Salinized Fine Roots Grams per Meter Dry Weight/ Salinized Total Weight Sodium10
Salinized Fine Roots Sodium10
Salinized Fine Roots Sodium/Potassium Accumulation Percentage40
Salinized Leaf Chloride20
Salinized Leaf Chloride/ Potassium20
Salinized Leaf (Cl)20
Salinized Leaf Dry Weight20
Salinized Leaf Gram per Meter Dry Weight40
Salinized Leaf (Na)30
Salinized Leaf Potassium10
Salinized Leaf Potassium Accumulation20
Salinized Leaf Sodium40
Salinized Leaf Sodium/Potassium Accumulation30
Salinized Leaf Sodium/Potassium Accumulation Percentage20
Salinized Net Growth30
Salinized Percentage Fine Roots Sodium10
Salinized Percentage Leaf Chloride10
Salinized Percentage Leaf Sodium30
Salinized Percentage Stem Sodium30
Salinized Percentage Structural Roots Chloride10
Salinized Percentage Structural Roots Sodium40
Salinized Stem Chloride20
Salinized Stem Chloride/Potassium Accumulation Percentage10
Salinized Stem (Cl)10
Salinized Stem Dry Weight40
Salinized Stem Gram per Meter Dry Weight40
Salinized Stem Sodium/Potassium Accumulation Percentage20
Salinized Structural Root Dry Weight30
Salinized Structural Root Grams per Meter/ Salinized Structural Root Sodium30
Salinized Structural Root (Na)20
Salinized Structural Roots Chloride10
Salinized Structural Roots Chloride/ Potassium10
Salinized Structural Roots Gram per Meter Dry Weight10
Salinized Structural Roots Sodium40
Salinized Structural Roots Sodium/Potassium Accumulation20
Salinized Structural Roots Sodium/Potassium Accumulation Percentage10
Salinized Total Dry Weight10
Salinized Total Gram per Meter Dry Weight70
Salinized Total Growth60
Salinized Total Plant Chloride40
Salinized Total Plant Chloride/ Sodium40
Salinized Total Plant Sodium10
Salinized Whole Plant Chloride/Potassium10
Salinized Whole Plant (Cl)10
Salinized Whole Plant (Cl/Na)30
Salinized Whole Plant Gram per Meter Dry Weight/ Salinized Structural Root Sodium20
Salinized Whole Plant Sodium/Potassium40
Seed Embryony100
Segments per fruit10
Soluble solids content/ titratable acidity30
Soluble solid (total soluble solids)60
Technological index50
Total Carotenoid130
Total Violaxanthin50
total ζ-carotene30
Tree Canopy Width20
Tree Growth10
Tree Height20
Tree Vigor10
Trunk Diameter20
Trunk Diameter Growth20
zeaxanthin20
β-carotene20
β-cryptoxanthin30
ζ-carotene120
ζ-carotene230
ζ-carotene330
 
 Species : 102 species
GenusSpecies
Citroncirusx paradisi x trifoliata
Citrusacidoglobosa, amblycarpa, aurantifolia, aurantiifolia, aurantium, australasica, bergamia, canaliculata, cavaleriei, celebica, clementina, clementina x Citrus reticulata, deliciosa, depressa, genshokan, grandis, halimii, hanaju, hassaku, hindsii, hongheensis, hybrid, hybrid cultivar, hystrix, ichangensis, indica, iyo, jambhiri, japonica, japonica var. margarita, junos, keraji, kinokuni, kizu, latifolia, latipes, leiocarpa, limettioides, limon, limonia, limonimedica, longispina, lycopersicaformis, macrophylla, macroptera, madurensis, maxima, maxima x Citrus paradisi, maxima x Citrus trifoliata, medica, medica var. sarcodactylis, medica var. yunnanensis, meyeri, micrantha, mitis, natsudaidai, nippokoreana, nobilis, oto, paradisi, platymamma, reshni, reticulata, reticulata x Citrus sinensis, reticulata x Citrus unshiu, sinensis, sinensis x Citrus reticulata, sinensis x Citrus trifoliata, southwickii, sphaerocarpa, spp., sp. 'speciosa', sp. 'tenuissima', suavissima, sudachi, suhuiensis, sunki, tachibana, taiwanica, takuma-sudachi, tamurana, tangerina, tankan, tarogayo, temple, trifoliata, unshiu, volkameriana, webberi, wilsonii, x clementina x tangelo, x microcarpa, x paradisi, x paradisi x Citrus sinensis, x paradisi x Citrus trifoliata, x reticulata x temple, x tangelo, yatsushiro, yuko
(Citrusunshiu x Citrus sinensis) x Citrus reticulata
Poncirustrifoliata
X Citroncirusspp., x limonia x trifoliata
X Citrusspp., x paradisi
 
 Transcripts
Analysis NameNumber of features
Citrus clementina Unigene version 1.0 (Ccv1)reads : 117,758
contig : 15,548
singlets :
Citrus sinensis CGD RefTrans V1Reference Transcriptomes : 33111
Citrus sinensis Unigene version 1.0 (Csv1)reads : 206,813
contig : 13,856
singlets :
Citrus trifoliata Unigene version 1.0 (Ctv1)reads : 61,874
contig : 6,884
singlets :