DPL0003, DPL0003 (genetic_marker) Gossypium hirsutum

Marker Overview
NameDPL0003
Genbank IDGQ394800
TypeSSR
SpeciesGossypium hirsutum
GermplasmDelta Opal
Source SequenceMONCS1823
Source Typegenomic
PCR ConditionAnnealing temperature: 55
Primer 1DPL0003_F: ATACTGGAAGAGAGGACATCCAAG
Primer 2DPL0003_R: GCAGTATGGGATTTGACTGAAAG
PolymorphismP_ DPL0003
Publication[view all]
ContactMonsanto
CommentPrimer data obtained in 2009-05
Contact
NameDetails
Monsanto
Country:United States
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankGQ394800
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D01chromosomeD01:51053865..51054078 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A01chromosomeA01:84448515..84448698 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018215.1chromosomeCM018215.1:49934253..49934462 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_01chromosomeD5_01:44466526..44466705 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_01chromosomeKI_01:31287757..31287954 +Gossypioides kirkii genome ISU_v3n/a
Chr02_CRI-A2_v1.0.a1chromosomeChr02_CRI-A2_v1.0.a1:56777057..56777254 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_01chromosomeD10_01:12588719..12588922 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016614.1chromosomeCM016614.1:112221130..112221331 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr2chromosomeDt_chr2:16568534..16569481 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr5chromosomeAt_chr5:41702422..41702605 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D01chromosomeD01:48282778..48282991 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A01chromosomeA01:80320106..80320289 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D01chromosomeGhir_D01:50056939..50057152 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A01chromosomeGhir_A01:96771809..96771992 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D01chromosomeD01:51885272..51885487 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A01chromosomeA01:97753674..97753857 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D01chromosomeD01:51442376..51442591 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A01chromosomeA01:95432629..95432812 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D01chromosomeD01:48982059..48982288 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A01chromosomeA01:93027421..93027606 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At01chromosomeAt01:63516637..63516822 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold5326supercontigscaffold5326:710234..710441 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold2772supercontigscaffold2772:72408..72593 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D01chromosomeGbar_D01:50171322..50171529 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A01chromosomeGbar_A01:95503934..95504119 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D01chromosomeD01:50854347..50854556 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A01chromosomeA01:95367862..95368043 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017623.1chromosomeCM017623.1:51018154..51018379 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017610.1chromosomeCM017610.1:93683874..93684061 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017649.1chromosomeCM017649.1:52197175..52197398 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017636.1chromosomeCM017636.1:100937254..100937435 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017701.1chromosomeCM017701.1:50368091..50368302 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D01chromosomeD01:51923909..51924122 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A01chromosomeA01:98848330..98848513 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:101934185..101934382 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr02chromosomeChr02:44760037..44760234 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr01chromosomeChr01:39987716..39987895 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_01chromosomeB_01:79829791..79829995 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr02chromosomeChr02:48200390..48200583 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr02chromosomechr02:36714333..36714626 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr02chromosomeChr02:49020093..49020292 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr02chromosomeChr02:36064619..36064814 +Gossypium aridum (D4) genome ISU_v1n/a
Chr02chromosomeChr02:28342692..28342867 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr02chromosomeChr02:34614645..34614932 +Gossypium lobatum (D7) genome ISU_v1n/a
F01chromosomeF01:82111428..82111640 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr01chromosomeChr01:26996349..26996526 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr02chromosomeDPL0003:1..514 .
Chr02:50293455..50293935 +		n/a
Chr2chromosomeDPL0003:1..514 .
Chr2:13054339..13054820 -		n/a
Germplasm
Stock NameType
Delta Opalaccession
Relationships

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

Feature NameUnique NameSpeciesType
MONCS1823MONCS1823Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1TM-1 x 3-79, RIL (2014)AD_ch01_At.01N/A70.2DPL0003aView
2TM-1 x (TX-0256 + TX-1046), CSIL (2016)AD_ch15_Dt.01N/A70.2DPL0003aView
3Monsanto SSR Bin Map, (2009)AD_ch01_At.01N/A61DPL0003aView
4TM-1 x 3-79, RIL (2014)AD_ch15_Dt.01N/A50.3DPL0003bView
5TM-1 x (TX-0256 + TX-1046), CSIL (2016)AD_ch26_Dt.12N/A54.4DPL0003bView
6Monsanto SSR Bin Map, (2009)AD_ch15_Dt.01N/A41DPL0003bView
7GX1135 x GX100-2, RIL (2016)AD_ch01_At.01N/A51.7DPL0003View
8TM-1 x 3-79, RIL (2012.v3)AD_ch01_At.01N/A70.22DPL0003aView
9TM-1 x 3-79, RIL (2012.v3)AD_ch15_Dt.01N/A50.3DPL0003bView
Sequence
>DPL0003 ID=DPL0003; Name=DPL0003; organism=Gossypium hirsutum; type=genetic_marker; length=210bp
ATACTGGAAGAGAGGACATCCAAGAAGAAAGGAGTAGCTAGTGTTTTTGT
TGTGAGTATAATACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTCTCTCTGTGTGTTTTATATAGAACGCAATAGTGACAAAAGCCCAG
AACTTCAAATAATCCAAAATAAAGAAGTGCCCGAGAGCTTTCAGTCAAAT
CCCATACTGC