HAU1460, HAU1460 (genetic_marker) gossypium spp

Marker Overview
NameHAU1460
AliasTA39686_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TC)8
PCR ConditionAnnealing temperature: 57.1
Primer 1HAU1460_F: AAAATTCACCCCCTCACC
Primer 2HAU1460_R: GGCTGATGCTGAACTAACCT
Product Length261
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D13chromosomeD13:38882000..38882595 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018227.1chromosomeCM018227.1:35217227..35217822 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018214.1chromosomeCM018214.1:76852493..76853089 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_13chromosomeD5_13:34497978..34498573 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_13chromosomeKI_13:27586269..27586873 -Gossypioides kirkii genome ISU_v3n/a
Chr13_CRI-A2_v1.0.a1chromosomeChr13_CRI-A2_v1.0.a1:88296259..88296854 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
Dt_chr13chromosomeDt_chr13:30732751..30733346 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D13chromosomeD13:34843022..34843617 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D13chromosomeGhir_D13:38258655..38259250 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D13chromosomeD13:39619478..39620073 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D13chromosomeD13:38396274..38396869 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D13chromosomeD13:35325178..35325773 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold7659supercontigscaffold7659:352643..353238 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold5750supercontigscaffold5750:114610..115206 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D13chromosomeGbar_D13:34967821..34968416 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A13chromosomeGbar_A13:77973924..77974520 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D13chromosomeD13:36520712..36521307 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A13chromosomeA13:81180213..81180809 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017635.1chromosomeCM017635.1:36510210..36510803 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017661.1chromosomeCM017661.1:39051091..39051687 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017648.1chromosomeCM017648.1:82172134..82172729 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
D13chromosomeD13:39357798..39358393 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr13chromosomeChr13:82591033..82591628 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr13chromosomeChr13:86695086..86695681 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr13chromosomeChr13:34734959..34735555 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_13chromosomeB_13:35991866..35992458 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr13chromosomeChr13:35434508..35435108 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr13chromosomeChr13:24438845..24439420 -Gossypium aridum (D4) genome ISU_v1n/a
Chr13_293823chromosomeChr13_293823:1557..2156 -Gossypium gossypioides (D6) genome ISU_v1n/a
E13chromosomeE13:77060381..77060973 -Gossypium stocksii (E1) genome NSF_v1n/a
F13chromosomeF13:65034427..65035028 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:60220917..60221513 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1GX1135 x GX100-2, RIL (2015)AD_ch06_At.06N/A49.5HAU1460View
2GX1135 x GX100-2, RIL (2016)AD_ch06_At.06N/A97.3HAU1460View
Sequence
>HAU1460 ID=HAU1460; Name=HAU1460; organism=Gossypium spp.; type=genetic_marker; length=261bp
AAAATTCACCCCCTCACCCCCCCTTCTCTCTCTCTCTCTCCAACTAAACA
TTTCACACTCTCTTTCTATAATTTTATTTACTTGTGTTCTTTAAAGAGAC
TGGAATTATACCATGTTTTTCCTAGATTGGATCTATGGGATCCTTGCTTC
CCTTGGTTTATGGCAAAAAGAGGCCAAGATTTTGTTTTTGGGGCTTGATA
ATGCCGGCAAAACGACCTTGCTTCACATGCTCAAAGATGAGAGGTTAGTT
CAGCATCAGCC