HAU0920, HAU0920 (genetic_marker) gossypium spp

Marker Overview
NameHAU0920
AliasTA21392_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TA)10
PCR ConditionAnnealing temperature: 55.3
Primer 1HAU0920_F: ATCTCTTCAATGGCTGCTTC
Primer 2HAU0920_R: GAAGTCTTCACTACCATTACCTT
Product Length138
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A03chromosomeA03:7657925..7658082 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D03chromosomeD03:45208600..45208737 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018204.1chromosomeCM018204.1:7507458..7507613 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018217.1chromosomeCM018217.1:45510438..45510575 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_02chromosomeD5_02:39404045..39404183 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:104702619..104702778 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016615.1chromosomeCM016615.1:103102322..103102466 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr5chromosomeAt_chr5:5306257..5306414 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr3chromosomeDt_chr3:18607983..18608120 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A03chromosomeA03:6542223..6542380 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D03chromosomeD03:39266393..39266530 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A03chromosomeGhir_A03:8399229..8399386 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D03chromosomeGhir_D03:44988871..44989008 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A03chromosomeA03:7916771..7916928 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D03chromosomeD03:46494007..46494144 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A03chromosomeA03:8351297..8351454 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D03chromosomeD03:45986111..45986248 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A03chromosomeA03:7779883..7780040 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
D03chromosomeD03:45293252..45293389 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold3649supercontigscaffold3649:75152..75289 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3649supercontigscaffold3649:76813..76968 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12251supercontigscaffold12251:71528..71665 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12251supercontigscaffold12251:68728..68865 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A03chromosomeGbar_A03:7381374..7381529 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D03chromosomeGbar_D03:43933380..43933517 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A03chromosomeA03:7627410..7627565 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
D03chromosomeD03:46428765..46428902 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017612.1chromosomeCM017612.1:7956606..7956761 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017625.1chromosomeCM017625.1:44770175..44770312 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017638.1chromosomeCM017638.1:8371617..8371772 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017651.1chromosomeCM017651.1:48892608..48892745 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017690.1chromosomeCM017690.1:7833504..7833659 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017703.1chromosomeCM017703.1:46398049..46398186 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A03chromosomeA03:8452800..8452957 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
D03chromosomeD03:47246837..47246974 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr02chromosomeChr02:7461748..7461913 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr01chromosomeChr01:110620656..110620815 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr02chromosomeChr02:41499527..41499666 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_04chromosomeB_04:8267131..8267278 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr03chromosomeChr03:42825831..42825979 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr03chromosomeChr03:24692582..24692729 -Gossypium aridum (D4) genome ISU_v1n/a
Chr03chromosomeChr03:26618674..26618821 -Gossypium lobatum (D7) genome ISU_v1n/a
E02chromosomeE02:78271482..78271627 -Gossypium stocksii (E1) genome NSF_v1n/a
F02chromosomeF02:69087342..69087493 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr02chromosomeChr02:12608260..12608408 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch03_At.03N/A66.51HAU0920View
Sequence
>HAU0920 ID=HAU0920; Name=HAU0920; organism=Gossypium spp.; type=genetic_marker; length=138bp
ATCTCTTCAATGGCTGCTTCATGAAAATTCGTTGAAGCATCCCACCTTTG
AAAGGGTCTTTGATTTGGGTCAAATCAAGAATTAAGTCCCACCTATATAT
ATATACATATATTTTAAGGTAATGGTAGTGAAGACTTC