MUSS0172, MUSS0172 (genetic_marker) Gossypium arboreum

Marker Overview
NameMUSS0172
AliasMUSS172
Genbank IDN/A
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8401
Source TypeEST
Repeat MotifCTT(7)
PCR ConditionAnnealing temperature: 55
Primer 1MUSS172_F: TTTCTATCCCACCATTTTCCC
Primer 2MUSS172_R: GTGTTTGTGTCACTGTGCCG
Product Length223
PolymorphismP_ MUSS0172
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
Aligned FeatureFeature TypeAlignment Location
D02chromosomeD02:53190323..53190526 -
A03chromosomeA03:82264657..82264858 -
CM018216.1chromosomeCM018216.1:49891082..49891285 -
CM018204.1chromosomeCM018204.1:83555637..83555853 -
D5_03chromosomeD5_03:17412548..17412751 +
KI_03chromosomeKI_03:33828495..33828701 -
Chr03_CRI-A2_v1.0.a1chromosomeChr03_CRI-A2_v1.0.a1:107864597..107864819 -
D10_03chromosomeD10_03:17232319..17232522 +
Dt_chr5chromosomeDt_chr5:34478007..34478210 +
At_chr5chromosomeAt_chr5:26307134..26307335 -
D02chromosomeD02:50485649..50485852 -
A03chromosomeA03:75568693..75568894 -
Ghir_D02chromosomeGhir_D02:52287753..52287956 -
Ghir_A03chromosomeGhir_A03:89358243..89358444 -
D02chromosomeD02:52918696..52918899 -
A03chromosomeA03:88602558..88602759 -
D02chromosomeD02:53665438..53665641 -
A03chromosomeA03:86385133..86385334 -
D02chromosomeD02:50709764..50709967 -
A03chromosomeA03:81951468..81951669 -
At03chromosomeAt03:77602715..77602931 -
scaffold10038supercontigscaffold10038:931195..931398 +
scaffold10038supercontigscaffold10038:929176..929379 +
scaffold1128supercontigscaffold1128:417565..417781 -
Gbar_D02chromosomeGbar_D02:50469706..50469909 -
Gbar_A03chromosomeGbar_A03:82911093..82911309 -
D02chromosomeD02:51816413..51816616 -
A03chromosomeA03:85032224..85032443 -
CM017624.1chromosomeCM017624.1:52701096..52701299 -
CM017612.1chromosomeCM017612.1:84532595..84532823 -
CM017650.1chromosomeCM017650.1:54098215..54098418 -
CM017638.1chromosomeCM017638.1:90859874..90860102 -
CM017702.1chromosomeCM017702.1:51299257..51299460 -
CM017690.1chromosomeCM017690.1:84966675..84966894 -
D02chromosomeD02:54661527..54661730 -
A03chromosomeA03:89890770..89890971 -
Chr03chromosomeChr03:27981703..27981933 +
Chr03chromosomeChr03:45811654..45811857 -
B_03chromosomeB_03:23614160..23614354 +
Chr05chromosomeChr05:50153353..50153556 -
Chr05chromosomeChr05:27083109..27083312 -
Chr05chromosomeChr05:33514799..33515002 -
F03chromosomeF03:87370591..87370803 -
Germplasm
Stock NameType
AKA 8401accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch03_At.03N/A97.46MUSS172View
2TM-1 x 3-79, RIL (2006)AD_ch03_At.03N/A65.7MUSS172View
3TM-1 x 3-79, RIL (2012)AD_ch03_At.03N/A57.45MUSS172View
4Yumian-1 x T586, F2:7 (2008)AD_ch03_At.03N/A34.5MUSS172View
5Yumian-1 x T586, RIL (2006)AD_ch03_At.03N/A35.3MUSS172View
6(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch03_At.03N/A41.6MUSS172View
7Yumian-1 x T586, RIL (2015)AD_ch03_At.03N/A60.3MUSS172View
8Yumian-1 x 7235, RIL (2015)AD_ch03_At.03N/A76.8MUSS172View
9TM-1 x 3-79, RIL (2014)AD_ch03_At.03N/A58.9MUSS172View
10CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch03_At.03N/A89.6MUSS172View
11AD-genome wide Reference Map (2009)AD_ch03_At.03N/A110muss0172View
12Yumian-1 x T586, RIL (2009)AD_ch03_At.03N/A36.4MUSS172/200y(C3)View
13TM-1 x 3-79, RIL (2012.v3)AD_ch03_At.03N/A58.92MUSS172View
Sequence
>MUSS0172 ID=MUSS0172; Name=MUSS0172; organism=Gossypium arboreum; type=genetic_marker; length=223bp
TTTCTATCCCACCATTTTCCCTTTTTTTTTGTTTTCTAAAACATGGCCAA
CACACTACTTCACAAACCTCTCATTACCTTCTTCTTCTTTTTCTTCTTCA
GCTTATTTATTCAAACCAAGCAAGATAACCCATGTCCGTATCCATGTTAC
CCACCACCAACAGGCAGCGGCGGCGGAGGCGAAGGTGGAGGCGGCGGCGG
CGGCGGCACAGTGACACAAACAC