MUSS0280, MUSS0280 (genetic_marker) Gossypium arboreum

Marker Overview
NameMUSS0280
AliasMUSS280
Genbank IDN/A
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8401
Source TypeEST
Repeat MotifATT(7)
PCR ConditionAnnealing temperature: 55
Primer 1MUSS280_F: GTGATTCCTGCTGGGTCTTC
Primer 2MUSS280_R: TTTTCCAACCAATAACAAATACC
Product Length236
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
A08chromosomeA08:46799348..46799578 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018209.1chromosomeCM018209.1:37837009..37837236 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:32034836..32035066 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_08chromosomeD10_08:31073757..31073989 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016621.1chromosomeCM016621.1:92072519..92072763 -Gossypium australe (G2) genome CRI_v1.1n/a
At_chr3chromosomeAt_chr3:77412587..77412878 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A08chromosomeA08:40573723..40573953 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A08chromosomeGhir_A08:40864376..40864606 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A08chromosomeA08:40569684..40569914 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A08chromosomeA08:40752330..40752560 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A08chromosomeA08:36441759..36441989 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At08chromosomeAt08:43016714..43016941 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3038supercontigscaffold3038:75367..75594 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A08chromosomeGbar_A08:39244075..39244302 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A08chromosomeA08:38246557..38246784 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017617.1chromosomeCM017617.1:39165484..39165714 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017643.1chromosomeCM017643.1:42230688..42230918 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017695.1chromosomeCM017695.1:38621418..38621645 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A08chromosomeA08:41720500..41720730 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:43399727..43399959 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr08chromosomeChr08:31456894..31457124 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
B_08chromosomeB_08:40854482..40854711 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr_04chromosomeChr_04:17423306..17423538 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr04chromosomeChr04:14008331..14008569 -Gossypium gossypioides (D6) genome ISU_v1n/a
E08chromosomeE08:37642040..37642227 +Gossypium stocksii (E1) genome NSF_v1n/a
F08chromosomeF08:39244388..39244613 -Gossypium longicalyx (F1) genome NSF_v1n/a
Germplasm
Stock NameType
AKA 8401accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch08_At.08N/A100muss0280View
2TM-1 x 3-79, RIL (2006)AD_ch08_At.08N/A57.4MUSS280View
3TM-1 x 3-79, RIL (2012)AD_ch24_Dt.08N/A29.43MUSS280View
4TM-1 x 3-79, RIL (2014)AD_ch24_Dt.08N/A35.5MUSS280View
5TM-1 x 3-79, RIL (2012.v3)AD_ch24_Dt.08N/A35.48MUSS280View
6PD 94042 x (AD)4-08, F2 (2016)AD_ch24_Dt.08N/A25.8MUSS280View
Sequence
>MUSS0280 ID=MUSS0280; Name=MUSS0280; organism=Gossypium arboreum; type=genetic_marker; length=236bp
GTGATTCCTGCTGGGTCTTCCGGTGGTGGGAAGAAAGCTTTCACTGGAAT
GTAAGGGCGTGAGTGTTATTTTAAATATATATATGTGATAGTTTGGGGTT
TTTAAAAACCTATGAAGAAGGCACTAAGATTTTGATGAACTAACTACACA
TGGAATTTTCAATATATTCCCAATTATTATTATTATTATTATTGTAATGA
TCTTGAAGTATATGGTATTTGTTATTGGTTGGAAAA