HAU2085, HAU2085 (genetic_marker) gossypium spp

Marker Overview
NameHAU2085
Genbank IDEX167156
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TCC)6
PCR ConditionAnnealing temperature: 56.8
Primer 1HAU2085_F: AGCGGCCTACCTCTTCCTCT
Primer 2HAU2085_R: GGCCATCGCTTCCGCCATTA
Product Length220
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankEX164761
DB:genbankEV498222
DB:genbankEV491078
DB:genbankEX167156
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D04chromosomeD04:34918446..34918663 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018218.1chromosomeCM018218.1:33299248..33299461 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018205.1chromosomeCM018205.1:44884561..44884765 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_04chromosomeD5_04:20533193..20533401 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:40589124..40589334 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_04chromosomeD10_04:32333934..32334157 +Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr6chromosomeDt_chr6:38234507..38234724 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr12chromosomeAt_chr12:28653032..28653249 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D04chromosomeD04:30273288..30273505 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D04chromosomeGhir_D04:35173672..35173889 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A04chromosomeGhir_A04:46838404..46838614 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D04chromosomeD04:36340832..36341049 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:49386812..49387022 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D04chromosomeD04:35286544..35286761 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:47019256..47019466 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D04chromosomeD04:32930709..32930926 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A04chromosomeA04:43403294..43403504 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt04chromosomeDt04:30495351..30495564 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold2434supercontigscaffold2434:12346..12559 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D04chromosomeGbar_D04:31482892..31483105 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A04chromosomeGbar_A04:44973024..44973228 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D04chromosomeD04:36663157..36663370 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A04chromosomeA04:45729595..45729799 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017626.1chromosomeCM017626.1:33968887..33969105 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017613.1chromosomeCM017613.1:46973704..46973908 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017652.1chromosomeCM017652.1:36449242..36449466 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017639.1chromosomeCM017639.1:51771198..51771408 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017704.1chromosomeCM017704.1:33802920..33803133 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017691.1chromosomeCM017691.1:45175036..45175240 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D04chromosomeD04:36738547..36738764 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A04chromosomeA04:49780045..49780255 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:70337280..70337490 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr04chromosomeChr04:20497770..20497978 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_02chromosomeB_02:30770269..30770479 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr12chromosomeChr12:33115450..33115672 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
E04chromosomeE04:78256546..78256762 -Gossypium stocksii (E1) genome NSF_v1n/a
Chr04chromosomeChr04:80128767..80128971 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch04_At.04N/A94.63HAU2085View
Sequence
>HAU2085 ID=HAU2085; Name=HAU2085; organism=Gossypium spp.; type=genetic_marker; length=219bp
AGCGGCCTACCTCTTCCTCTTCCTCCTCCTCCTCCTCCTCTACGACAATT
AAAACAAGNAAATTCAAACCTCTCAATTTTTTTTCTTCACATCCATATTC
ATTAAAATCTTAGATTAGATTATTCCCACTTTGTGTTTTTCTAATTGCGT
TGAATATGGATTGTGAATTAAAGAAAGATTGTCACGATGGAATTGTCGTT
AATGGCGGAAGCGATGGCC