BNL2706, BNL2706 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL2706
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL2706_orig
Source Typegenomic
Repeat Motif(AG)20
PCR ConditionAnnealing temperature: 55
Primer 1BNL2706_F: TCGATAGGGATAATCGTCTCA
Primer 2BNL2706_R: GGAAATGCGATCCAAGTTTG
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A02chromosomeA02:49754199..49754420 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D03chromosomeD03:29526974..29527176 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018203.1chromosomeCM018203.1:47689402..47689627 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018217.1chromosomeCM018217.1:30353555..30353753 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_02chromosomeD5_02:25177953..25178183 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:78278767..78279020 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_02chromosomeD10_02:28931194..28931437 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr3chromosomeDt_chr3:3227007..3227209 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr3chromosomeAt_chr3:94874643..94874868 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A02chromosomeA02:46474803..46475026 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D03chromosomeD03:23819514..23819716 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A02chromosomeGhir_A02:50662299..50662520 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D03chromosomeGhir_D03:29776372..29776574 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A02chromosomeA02:48780003..48780226 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D03chromosomeD03:31488332..31488534 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:49156240..49156463 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D03chromosomeD03:30701617..30701819 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:48619285..48619508 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
D03chromosomeD03:30117091..30117293 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold4502supercontigscaffold4502:350299..350497 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A02chromosomeGbar_A02:48223811..48224029 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D03chromosomeGbar_D03:28725587..28725785 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A02chromosomeA02:48734595..48734822 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
D03chromosomeD03:31382475..31382673 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017611.1chromosomeCM017611.1:48040787..48040994 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017625.1chromosomeCM017625.1:29757687..29757901 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017637.1chromosomeCM017637.1:51463172..51463395 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017651.1chromosomeCM017651.1:33676655..33676871 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017689.1chromosomeCM017689.1:48427517..48427762 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017703.1chromosomeCM017703.1:31179864..31180062 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A02chromosomeA02:50123843..50124064 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
D03chromosomeD03:31745375..31745577 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr02chromosomeChr02:33827270..33827487 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr01chromosomeChr01:84795992..84796245 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr02chromosomeChr02:26577276..26577506 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_04chromosomeB_04:28629937..28630150 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr03chromosomeChr03:28209146..28209365 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr03chromosomechr03:17191014..17191239 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr03chromosomeChr03:29962364..29962602 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr03chromosomeChr03:14497021..14497230 +Gossypium aridum (D4) genome ISU_v1n/a
Chr03chromosomeChr03:12568701..12568902 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr03chromosomeChr03:15414743..15415297 +Gossypium lobatum (D7) genome ISU_v1n/a
E02chromosomeE02:52698378..52698595 -Gossypium stocksii (E1) genome NSF_v1n/a
F02chromosomeF02:47581879..47582106 -Gossypium longicalyx (F1) genome NSF_v1n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

The following sequence_feature feature(s) derives from this genetic_marker:

Feature NameUnique NameSpeciesType
BNL2706_origBNL2706_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch17_Dt.03N/A153BNL2706View
2Emian-22 x 3-79, BC1 (2011)AD_ch17_Dt.03N/A103.04BNL2706View
3AD-genome wide Reference Map (2009)AD_ch02_At.02N/A69BNL2706View
4Monsanto SSR Bin Map, (2009)AD_ch02_At.02N/A61BNL2706View
5Handan-208 x Pima-90, F2:3 (2007)AD_ch17_Dt.03N/A139.5BNL2706b*View
6Xinluzao-1 x Hai-7124, F2 (2008)AD_chUN/A12.7BNL2706-1View
7Xinluzao-1 x Hai-7124, F2 (2008)AD_ch02_At.02N/A123.5BNL2706-2View
Sequence
>BNL2706 ID=BNL2706; Name=BNL2706; organism=Gossypium hirsutum; type=genetic_marker; length=224bp
TCGATAGGGATAATCGTCTCAAATTTGTTTAGTAGAGACATAAAACAATT
TATGAGAATATTATATACATAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG
AGAGAGAGAGTTTGTGCTTAGATAAATACATACTTCTAAATACATACATT
CTGAAATTTGTGAATTGTTTTATAATAAACTCTATACGATTGTGATAGTT
AAAACAAACTTGGATCGCATTTCC