BNL2538, BNL2538 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL2538
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL2538_orig
Source Typegenomic
Repeat Motif(GA)12
PCR ConditionAnnealing temperature: 55
Primer 1BNL2538_F: AAGAGGAGGAGGAGAGGTGG
Primer 2BNL2538_R: CGGTTTTGTTTTGGCTGATT
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A08chromosomeA08:41757850..41758008 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018209.1chromosomeCM018209.1:29350403..29350612 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:42541119..42541293 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
At_chr2chromosomeAt_chr2:4236608..4236766 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A08chromosomeA08:36741088..36741246 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A10chromosomeGhir_A10:39512302..39512446 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A08chromosomeGhir_A08:30426553..30426711 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A01chromosomeGhir_A01:79274727..79274871 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A08chromosomeA08:30539778..30539936 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A08chromosomeA08:30870128..30870286 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A08chromosomeA08:45701564..45701720 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At01chromosomeAt01:54237287..54237431 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold2112supercontigscaffold2112:62285..62429 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold2377supercontigscaffold2377:64875..65019 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold14823supercontigscaffold14823:29438..29583 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A08chromosomeGbar_A08:30166161..30166370 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:39485873..39486017 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A02chromosomeGbar_A02:66416960..66417101 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A01chromosomeGbar_A01:78012387..78012531 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A01chromosomeGbar_A01:36800504..36800643 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A08chromosomeA08:29253884..29254093 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017617.1chromosomeCM017617.1:29551284..29551436 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017643.1chromosomeCM017643.1:31448979..31449129 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017695.1chromosomeCM017695.1:29613622..29613831 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
A08chromosomeA08:31671390..31671548 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:33158814..33158970 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr08chromosomeChr08:40718003..40718177 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL2538_origBNL2538_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch08_At.08N/A181BNL2538View
2Xinluzao-1 x Hai-7124, F2 (2008)AD_ch08_At.08N/A73.9BNL2538View
3Monsanto SSR Bin Map, (2009)AD_ch08_At.08N/A101BNL2538View
Sequence
>BNL2538 ID=BNL2538; Name=BNL2538; organism=Gossypium hirsutum; type=genetic_marker; length=157bp
AAGAGGAGGAGGAGAGGTGGAGTATTCGGCCAAACAATAAAATGAAGAGA
GAAAAATAATTGGGAGAAACAGAAGAGAGAAAAAGGAGTATTTGGCTAAA
TCTTGAGAGAGAGAGAGAGAGAGAGAGAAGAGTAGAGAATCAGCCAAAAC
AAAACCG