BNL0500, BNL0500 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL0500
AliasBNL500
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL0500_orig
Source Typegenomic
Repeat Motif(GA)11
PCR ConditionAnnealing temperature: 55
Primer 1BNL0500_F: TACAAAGCCAGGTCAAAGGG
Primer 2BNL0500_R: TGGTCATTGGAAGCAGATGA
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D08chromosomeD08:47290683..47290788 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018222.1chromosomeCM018222.1:44055185..44055290 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_08chromosomeD5_08:40208825..40208926 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_08chromosomeD10_08:20644951..20645052 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr4chromosomeDt_chr4:10661473..10661576 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D08chromosomeD08:43742036..43742141 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D08chromosomeGhir_D08:46587503..46587608 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A08chromosomeGhir_A08:90939897..90939996 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D08chromosomeD08:47581337..47581442 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D08chromosomeD08:46494205..46494308 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D08chromosomeD08:43759589..43759694 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold5633supercontigscaffold5633:249897..250002 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold127supercontigscaffold127:132851..132950 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D08chromosomeGbar_D08:43993435..43993540 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A08chromosomeGbar_A08:88266267..88266366 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D08chromosomeD08:46086588..46086691 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017630.1chromosomeCM017630.1:45544509..45544610 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017656.1chromosomeCM017656.1:47203139..47203246 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017708.1chromosomeCM017708.1:44676978..44677079 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D08chromosomeD08:47061622..47061727 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:41110565..41110666 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_08chromosomeB_08:73999713..73999815 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr04chromosomeChr04:42661027..42661127 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr04chromosomechr04:31270236..31270347 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_04chromosomeChr_04:28377129..28377329 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr04chromosomeChr04:45065024..45065127 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr04chromosomeChr04:27786562..27786662 +Gossypium aridum (D4) genome ISU_v1n/a
Chr04chromosomeChr04:23211877..23211977 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr04chromosomeChr04:27712748..27712847 +Gossypium lobatum (D7) genome ISU_v1n/a
E08chromosomeE08:87408980..87409117 +Gossypium stocksii (E1) genome NSF_v1n/a
Chr08chromosomeChr08:61258663..61258763 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr04chromosomeBNL0500:1..312 .
Chr04:40898605..40898911 +		n/a
scaffold202supercontigBNL0500:1..312 .
scaffold202:955490..955796 -		n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL0500_origBNL0500_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch24_Dt.08N/A47.7BNL0500View
2Yumian-1 x 7235, RIL (2015)AD_ch24_Dt.08N/A31.5BNL0500View
3Monsanto SSR Bin Map, (2009)AD_ch24_Dt.08N/A81BNL0500View
4Xinluzao-1 x Hai-7124, F2 (2008)AD_ch24_Dt.08N/A117.5BNL500View
5DH962 x Jinmian-6, F2 (2009)AD_chUN/A40.7BNL500View
6DH962 X Ji Mian 5, F2 (2015)AD_ch24_Dt.08N/A37.95BNL500View
7DH962 x Ji Mian 5, RIL (2015)AD_ch24_Dt.08N/A6.7BNL500View
Sequence
>BNL0500 ID=BNL0500; Name=BNL0500; organism=Gossypium hirsutum; type=genetic_marker; length=106bp
TACAAAGCCAGGTCAAAGGGTTAGAAAAAAAAAAGCGAGAGAGAGAGAGA
GAGAGAGAACTTGGTAGTCAAAACTATGGAACTTGTTCATCTGCTTCCAA
TGACCA