MUCS0048, MUCS0048 (genetic_marker) Gossypium arboreum

Marker Overview
NameMUCS0048
AliasMUCS048
MUCS0048=MUSS0371
MUSS0371
Genbank IDN/A
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8401
Source TypeEST
Repeat MotifAGAAA(2)ATA(3)
PCR ConditionAnnealing temperature: 55
Primer 1MUCS048_F: GCTTTTCCTTGATGAAATCGG
Primer 2MUCS048_R: TTAATAATGGCAGCAGCATCC
Product Length261
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
D11chromosomeD11:73133417..73133677 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A11chromosomeA11:114218621..114218876 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018225.1chromosomeCM018225.1:69465109..69465369 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018212.1chromosomeCM018212.1:114614861..114615115 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_11chromosomeD5_11:112190..112443 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr11_CRI-A2_v1.0.a1chromosomeChr11_CRI-A2_v1.0.a1:159651..159910 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_11chromosomeD10_11:67582646..67582899 -Gossypium turneri (D10) genome NSF_v1_a2n/a
scaffold3582.1supercontigscaffold3582.1:73818..74231 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr12chromosomeDt_chr12:5411758..5412018 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D11chromosomeD11:66021398..66021658 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A11chromosomeA11:93161712..93161967 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D11chromosomeGhir_D11:72777443..72777703 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A11chromosomeGhir_A11:123047710..123047964 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D11chromosomeD11:71203179..71203439 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A11chromosomeA11:121259318..121259573 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D11chromosomeD11:72382019..72382279 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A11chromosomeA11:119243572..119243827 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D11chromosomeD11:69104921..69105181 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A11chromosomeA11:115797516..115797771 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At11chromosomeAt11:96739006..96739260 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold30529supercontigscaffold30529:46190..46450 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11559supercontigscaffold11559:460009..460263 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Scaffold3329supercontigScaffold3329:109513..109773 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A11chromosomeGbar_A11:113009416..113009670 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D11chromosomeD11:72152194..72152454 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A11chromosomeA11:116123647..116123901 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017633.1chromosomeCM017633.1:70693881..70694141 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017620.1chromosomeCM017620.1:120422548..120422803 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017659.1chromosomeCM017659.1:73453143..73453398 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017646.1chromosomeCM017646.1:126710104..126710359 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017711.1chromosomeCM017711.1:68974061..68974321 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017698.1chromosomeCM017698.1:114940659..114940914 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D11chromosomeD11:72719726..72719986 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A11chromosomeA11:124066126..124066381 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr11chromosomeChr11:132438485..132438744 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr11chromosomeChr11:131193248..131193507 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr11chromosomeChr11:55422..55676 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_11chromosomeB_11:102205912..102206171 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr07chromosomeChr07:69529973..69530209 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr07chromosomechr07:50179009..50179262 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_07chromosomeChr_07:49242174..49242428 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr07chromosomeChr07:71652609..71652869 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr07_266064chromosomeChr07_266064:10481..10735 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr07chromosomeChr07:48660875..48661128 -Gossypium lobatum (D7) genome ISU_v1n/a
F11chromosomeF11:99505719..99505979 -Gossypium longicalyx (F1) genome NSF_v1n/a
Germplasm
Stock NameType
AKA 8401accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1JLZM x ZJXSLS, F2 (2008)A_JZ_A01N/A66.8MUCS048View
2JLZM x ZJXSLS, F2 (2008)A_JZ_A08N/A177.9MUVS048View
Sequence
>MUCS0048 ID=MUCS0048; Name=MUCS0048; organism=Gossypium arboreum; type=genetic_marker; length=261bp
GCTTTTCCTTGATGAAATCGGATCCTATACAGTAATTTTTTTTTCATTCC
AAAAAACAAAAAAGAAAAGAAAATAATAATAGGAGAAAATAGCAATGCTT
ATACAAATGTTATTCAGAGACGCTTGAGTAAGTTGATTCATTTACCCAAG
AAAACAAATTCATTCTCAACTCTTGCTTTGCTTATTATTAAATAGTTCCG
TTTCATAGTGTCTTCTTCGAAACTTTCGATGTGGAAAAGGGGATGCTGCT
GCCATTATTAA