BNL2486, BNL2486 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL2486
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL2486_orig
Source Typegenomic
Repeat Motif(GA)17
PCR ConditionAnnealing temperature: 55
Primer 1BNL2486_F: CGAAACGTGGAACGAAAAAT
Primer 2BNL2486_R: CAAGCGGTAATAGGAATGCA
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D06chromosomeD06:66102667..66102807 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D03chromosomeD03:50120332..50120476 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018204.1chromosomeCM018204.1:2447129..2447271 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018217.1chromosomeCM018217.1:50246556..50246702 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
KI_2_4chromosomeKI_2_4:39182547..39182687 -Gossypioides kirkii genome ISU_v3n/a
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:110295627..110295763 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016615.1chromosomeCM016615.1:109555167..109555303 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold290.1supercontigscaffold290.1:941726..941870 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr5chromosomeAt_chr5:634012..634152 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold506_A03supercontigscaffold506_A03:71082..71222 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D03chromosomeD03:43885635..43885779 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A03chromosomeGhir_A03:3123675..3123812 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D03chromosomeGhir_D03:49769202..49769344 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A03chromosomeA03:2783001..2783141 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D03chromosomeD03:51040511..51040655 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A03chromosomeA03:2975531..2975671 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D03chromosomeD03:50745101..50745245 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A03chromosomeA03:2440774..2440914 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
D03chromosomeD03:50020522..50020666 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt03chromosomeDt03:46477266..46477710 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt03chromosomeDt03:46475435..46475633 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4568supercontigscaffold4568:14458..14902 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4568supercontigscaffold4568:12627..12825 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A03chromosomeGbar_A03:2454366..2454508 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D03chromosomeGbar_D03:48631622..48631767 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A03chromosomeA03:2570299..2570441 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
D03chromosomeD03:50989908..50990054 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017612.1chromosomeCM017612.1:2769255..2769401 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017625.1chromosomeCM017625.1:49476279..49476417 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017638.1chromosomeCM017638.1:3038545..3038677 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017651.1chromosomeCM017651.1:53600771..53600913 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017690.1chromosomeCM017690.1:2698181..2698323 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017703.1chromosomeCM017703.1:51103976..51104130 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A03chromosomeA03:3008231..3008371 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
D03chromosomeD03:52018803..52018947 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:116000833..116000969 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr03chromosomeChr03:28119944..28120082 -Gossypium aridum (D4) genome ISU_v1n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL2486_origBNL2486_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch17_Dt.03N/A35.03BNL2486View
2AD-genome wide Reference Map (2009)AD_ch17_Dt.03N/A31BNL2486View
3AD-genome wide Reference Map (2009)AD_ch03_At.03N/A20BNL2486View
4Xinluzao-1 x Hai-7124, F2 (2008)AD_ch03_At.03N/A83BNL2486View
5(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch03_At.03N/A28.2BNL2486View
6CCRI-35 x Yumian-1, RIL (2015)AD_ch17_Dt.03N/A50.5BNL2486View
7CCRI-35 x Yumian-1, RIL (2017)AD_ch17_Dt.03N/A103.67BNL2486View
Sequence
>BNL2486 ID=BNL2486; Name=BNL2486; organism=Gossypium hirsutum; type=genetic_marker; length=141bp
CGAAACGTGGAACGAAAAATGGAAAATTCTCAGCCAGCAATTATTATTTA
TCAAATTGTTAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATGGG
AAGTTGTATTCTAGTTTTATTTGCATTCCTATTACCGCTTG