COT010, COT010 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCOT010
Genbank IDGQ393117
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 20
Source SequenceMONCS1391
Source Typegenomic
Primer 1COT010_F: TCACGCTTATACCTACAATGC
Primer 2COT010_R: TTGGGATGAGGCTGAAC
PolymorphismP_ COT010
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:genbankGQ393117
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:38302001..38302177 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:49068984..49069153 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:36817398..36817572 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:47039795..47039962 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:34893887..34894063 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:50386896..50387066 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:22135167..22135342 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016618.1chromosomeCM016618.1:50826421..50826585 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:26757815..26757991 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr9chromosomeAt_chr9:24351763..24351932 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:37367998..37368174 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:45135627..45135796 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:37606796..37606972 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:47496713..47496882 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A01chromosomeGhir_A01:93350370..93350523 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:36726014..36726190 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:47173909..47174078 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:37330276..37330450 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:48783658..48783827 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:36965625..36965801 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:47712152..47712321 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt05chromosomeDt05:39695877..39696051 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6848supercontigscaffold6848:210005..210179 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3570supercontigscaffold3570:305133..305286 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4383supercontigscaffold4383:57633..57800 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:37696736..37696910 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:45717739..45717906 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A01chromosomeGbar_A01:92124826..92124979 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:37141090..37141264 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:47218767..47218934 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:37076959..37077141 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:47752536..47752702 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:37670920..37671092 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:49493947..49494114 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:37183555..37183729 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:47284859..47285026 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:38154031..38154207 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:49355929..49356098 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:50344762..50344929 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:51025244..51025414 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:35034688..35034864 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:37850383..37850552 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:35946779..35946974 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:30728211..30728399 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr09_5140580chromosomeChr09_5140580:2217..2392 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:37127935..37128107 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:27578396..27578655 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09_3471363chromosomeChr09_3471363:13315..13487 +Gossypium gossypioides (D6) genome ISU_v1n/a
E05chromosomeE05:59513204..59513375 -Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:42309591..42309762 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr05chromosomeChr05:48091011..48091191 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
Deltapine 20accession
Relationships

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

Feature NameUnique NameSpeciesType
MONCS1391MONCS1391Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1TM-1 x 3-79, RIL (2014)AD_ch05_At.05N/A73.7COT010aView
2Monsanto SSR Bin Map, (2009)AD_ch05_At.05N/A61COT010aView
3TM-1 x 3-79, RIL (2014)AD_ch19_Dt.05N/A60COT010bView
4Monsanto SSR Bin Map, (2009)AD_ch19_Dt.05N/A101COT010bView
5TM-1 x 3-79, RIL (2012.v3)AD_ch05_At.05N/A73.65COT010aView
6TM-1 x 3-79, RIL (2012.v3)AD_ch19_Dt.05N/A60.05COT010bView
Sequence
>COT010 ID=COT010; Name=COT010; organism=Gossypium hirsutum; type=genetic_marker; length=177bp
TCACGCTTATACCTACAATGCAAGACATGCTAATCAGATCAGCTAGAGTT
AAACACACACACACACACACACACACATTATTATTATTAACAACATCTAA
TCCTATAGAAATCACAATTCTTAAAACTAATTACACATCACCTTGCCATA
TATTTGGCACGTTCAGCCTCATCCCAA