HAU1051, HAU1051 (genetic_marker) gossypium spp

Marker Overview
NameHAU1051
AliasTA24813_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(CCT)5
PCR ConditionAnnealing temperature: 56.7
Primer 1HAU1051_F: GTGGATGTTGTCTTCCCTTT
Primer 2HAU1051_R: AACCCGAGATTCTTCCTTCT
Product Length262
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D11chromosomeD11:8705054..8705315 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A11chromosomeA11:8966402..8966667 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018225.1chromosomeCM018225.1:8126243..8126504 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018212.1chromosomeCM018212.1:8903149..8903411 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_11chromosomeD5_11:57821591..57821853 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_11chromosomeKI_11:6836590..6836839 +Gossypioides kirkii genome ISU_v3n/a
D10_11chromosomeD10_11:8086659..8086920 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016624.1chromosomeCM016624.1:11680615..11680874 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr5chromosomeDt_chr5:24837440..24837705 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr7chromosomeAt_chr7:9116628..9116889 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D11chromosomeD11:8686830..8687091 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A11chromosomeA11:8586260..8586525 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D11chromosomeGhir_D11:8505432..8505684 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A11chromosomeGhir_A11:9184166..9184431 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D11chromosomeD11:8387797..8388058 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A11chromosomeA11:8843890..8844155 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D11chromosomeD11:8566595..8566856 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A11chromosomeA11:9055982..9056247 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D11chromosomeD11:8503934..8504195 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A11chromosomeA11:9230783..9231048 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold19567supercontigscaffold19567:230..491 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12518supercontigscaffold12518:4699..4961 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12518supercontigscaffold12518:914..1176 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D11chromosomeGbar_D11:8343575..8343836 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A11chromosomeGbar_A11:8760574..8760836 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D11chromosomeD11:8359465..8359726 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A11chromosomeA11:8958492..8958754 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017633.1chromosomeCM017633.1:8264169..8264430 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017620.1chromosomeCM017620.1:9099593..9099861 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017659.1chromosomeCM017659.1:8617732..8617993 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017646.1chromosomeCM017646.1:9210390..9210652 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017711.1chromosomeCM017711.1:8393569..8393830 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017698.1chromosomeCM017698.1:9099002..9099265 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D11chromosomeD11:8724455..8724716 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A11chromosomeA11:9351854..9352119 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr11chromosomeChr11:9298887..9299149 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr11chromosomeChr11:8969769..8970027 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr11chromosomeChr11:55313706..55313968 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_11chromosomeB_11:8867866..8868132 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr07chromosomeChr07:8043678..8043939 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_07chromosomeChr_07:7637100..7637361 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr07chromosomeChr07:8342259..8342523 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
E11chromosomeE11:10018454..10018722 +Gossypium stocksii (E1) genome NSF_v1n/a
F11chromosomeF11:7876310..7876572 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeChr11:174756843..174757102 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU1051 ID=HAU1051; Name=HAU1051; organism=Gossypium spp.; type=genetic_marker; length=262bp
GTGGATGTTGTCTTCCCTTTGGCACTCCCTCTCTTTTTTCTTCTCCCACA
CCCTCCTCCTCCTCCTGCATCTCTCTCTTATTCTCCGCGAATTTTAAAAG
AAAAGAATTCCCGATATTTTTCAGTGAAGAAGATAATGCAGTCTTTTTGA
CGAATATTTCTTTTCAAATTCTCTTCTCTACTTCTCTTTTCCCTAATTGA
AGATAATCTAATATTGATTTGTATTATTGTTTTCCAGCCAAGAGAAGGAA
GAATCTCGGGTT