MUCS0359, MUCS0359 (genetic_marker) Gossypium arboreum

Marker Overview
NameMUCS0359
AliasMUCS359
Genbank IDN/A
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8401
Source TypeEST
Repeat MotifTGGT(2)GACTT(2)
PCR ConditionAnnealing temperature: 55
Primer 1MUCS359_F: GAGCTTGGTTGGTTTCAAGC
Primer 2MUCS359_R: CCCCCTGTGATCTTTTTACG
Product Length227
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
D08chromosomeD08:57163816..57164452 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A08chromosomeA08:109025820..109026452 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018222.1chromosomeCM018222.1:53684577..53685215 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018209.1chromosomeCM018209.1:104498816..104499453 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_08chromosomeD5_08:49996757..49997394 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:113758747..113759382 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_08chromosomeD10_08:11036962..11037600 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016621.1chromosomeCM016621.1:20079511..20080147 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr13chromosomeDt_chr13:8725707..8726344 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr5chromosomeAt_chr5:29715003..29715641 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D08chromosomeD08:53755373..53756011 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A08chromosomeA08:90454364..90455001 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D08chromosomeGhir_D08:56384633..56385271 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A08chromosomeGhir_A08:108336993..108337630 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D08chromosomeD08:57223602..57224240 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A08chromosomeA08:111349230..111349867 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D08chromosomeD08:56279685..56280323 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A08chromosomeA08:111154051..111154688 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D08chromosomeD08:53559237..53559875 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A08chromosomeA08:107155953..107156590 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold7581supercontigscaffold7581:149788..150425 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold7581supercontigscaffold7581:142467..143105 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13515supercontigscaffold13515:26292..26929 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13515supercontigscaffold13515:23128..23765 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Scaffold1773supercontigScaffold1773:11203..11840 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D08chromosomeGbar_D08:53652597..53653235 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A08chromosomeGbar_A08:105081333..105081970 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D08chromosomeD08:55697341..55697979 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A08chromosomeA08:106342042..106342679 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017630.1chromosomeCM017630.1:55172982..55173620 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017617.1chromosomeCM017617.1:104787066..104787703 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017656.1chromosomeCM017656.1:57309382..57310277 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017643.1chromosomeCM017643.1:114302132..114302769 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017708.1chromosomeCM017708.1:54314606..54315244 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017695.1chromosomeCM017695.1:105362897..105363534 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D08chromosomeD08:56954984..56955622 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A08chromosomeA08:113005654..113006291 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:116728017..116728652 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr08chromosomeChr08:117670085..117670720 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr08chromosomeChr08:50881429..50882067 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_08chromosomeB_08:88999336..88999974 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr04chromosomeChr04:52375976..52376614 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr04chromosomechr04:39387769..39388407 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_04chromosomeChr_04:35684323..35684961 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr04chromosomeChr04:54723003..54723641 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr04chromosomeChr04:34438225..34438863 +Gossypium aridum (D4) genome ISU_v1n/a
Chr04chromosomeChr04:28986056..28986694 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr04chromosomeChr04:34852559..34853197 +Gossypium lobatum (D7) genome ISU_v1n/a
E08chromosomeE08:105569758..105570395 +Gossypium stocksii (E1) genome NSF_v1n/a
F08chromosomeF08:91691348..91691987 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr08chromosomeChr08:28464077..28464715 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
AKA 8401accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1JLZM x ZJXSLS, F2 (2008)A_JZ_A02N/A53.1MUCS359-bView
Sequence
>MUCS0359 ID=MUCS0359; Name=MUCS0359; organism=Gossypium arboreum; type=genetic_marker; length=227bp
GAGCTTGGTTGGTTTCAAGCAACAGCTTCTGGTTACTATCAGCTGGGCAT
CGTAGTAGTGGTTGGTGACTTGACTTTTCACAATTTGCACCATCCCGATT
TGTCAGATAGAAGCAATGATGGATACCCAAGGAACGATGCTGCATCTGCA
GGCAAAAACCCTAAACTACTCCAGCAAAGTTGGCCATACCCAAGTCATGC
ATTATCTCGTAAAAAGATCACAGGGGG