MUCS0159, MUCS0159 (genetic_marker) Gossypium arboreum

Marker Overview
NameMUCS0159
AliasMUCS159
Genbank IDN/A
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8401
Source TypeEST
Repeat MotifGAA(2)GCT(2)
PCR ConditionAnnealing temperature: 55
Primer 1MUCS159_F: CAAAACAGTGAGGAGAGGGC
Primer 2MUCS159_R: AAGACCAAGTGAAATTGCTACTCC
Product Length265
ContactUlloa, Mauricio
CommentPrimer data obtained in 2007-11
Contact
NameDetails
Ulloa, Mauricio
Description:Breeding, genetics, and Genomics
First name:Mauricio
Last name:Ulloa
Title:Research Geneticist
Institution:USDA-ARS, W.I.C.S., Res. Unit
Address:17053 N. Shafter Ave., Shafter, California 93263
Country:United States
Email:mauricio.ulloa@usda.gov
Phone:661-746-8009
Fax:746-746-1619
Keywords:Breeding and Genomics
Last update:27-Apr-2010
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D10chromosomeD10:3940819..3941083 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018224.1chromosomeCM018224.1:3706114..3706378 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:4052172..4052436 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:58854100..58854364 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_10chromosomeKI_10:44026126..44026390 +Gossypioides kirkii genome ISU_v3n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:125297783..125298047 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:60465088..60465352 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:5261085..5261349 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr11chromosomeDt_chr11:509748..510012 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr10chromosomeDt_chr10:24274618..24274882 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:3750897..3751161 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:3938780..3939044 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:4141512..4141776 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:3849016..3849280 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:3813352..3813616 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:4038412..4038676 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:3947047..3947311 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:3438143..3438405 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:4029999..4030263 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A10chromosomeA10:4214177..4214441 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt10chromosomeDt10:4034705..4034969 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt10chromosomeDt10:4038457..4038721 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold34286supercontigscaffold34286:5893..6157 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold9879supercontigscaffold9879:169856..170120 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold9879supercontigscaffold9879:173608..173872 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D10chromosomeGbar_D10:3765098..3765362 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:4144266..4144530 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:3848264..3848528 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:4064830..4065094 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:3825286..3825550 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:4141269..4141533 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:3885408..3885672 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:4370846..4371110 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:3805764..3806028 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:4104584..4104848 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:3964431..3964695 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:4254918..4255182 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:4014335..4014599 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:4105776..4106040 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:3541532..3541796 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:99355649..99355913 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:3587103..3587367 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:3592043..3592307 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:3153396..3153660 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:3755043..3755307 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:3068595..3068859 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:2810065..2810329 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:3622038..3622302 -Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:109271110..109271374 +Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:3698770..3699034 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr10chromosomeChr10:164653504..164653768 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr11chromosomeMUCS0159:14..515 .
Chr11:3561910..3562493 -		n/a
Chr11chromosomeMUCS0159:14..515 .
Chr11:3641740..3642323 -		n/a
Germplasm
Stock NameType
AKA 8401accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1JLZM x ZJXSLS, F2 (2008)A_JZ_A03N/A127.4MUCS159-aView
2JLZM x ZJXSLS, F2 (2008)A_JZ_A12N/A111.2MUCS159-bView
Sequence
>MUCS0159 ID=MUCS0159; Name=MUCS0159; organism=Gossypium arboreum; type=genetic_marker; length=265bp
CAAAACAGTGAGGAGAGGGCTCATAGCTGGTGTTGGTCTCCAAGTTTTCC
AACAATTTGTTGGCATAAACACAGTCATGTATTACAGTCCCACCATTGTT
CAATTAGCTGGTTTTGCCTCTAACAAAACAGCACTTCTCCTTTCCCTAGT
CACCGCCGGCCTCAACGCCTTAGGCTCCATTGTAAGTATATACTTCATTG
ACAGGACTGGGAGGAAGAAGCTGCTACTGATCAGTTTGTTTGGAGTAGCA
ATTTCACTTGGTCTT