MUCS0537, MUCS0537 (genetic_marker) Gossypium arboreum

Marker Overview
NameMUCS0537
AliasMUCS537
Genbank IDN/A
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8401
Source TypeEST
Repeat MotifCTTT(2)TTTCT(2)
PCR ConditionAnnealing temperature: 55
Primer 1MUCS537_F: TTGTTGAGAGTGGGGGAAAG
Primer 2MUCS537_R: CCaACAATGGCAAATGAAAC
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 LocationAnalysis
A02chromosomeA02:89875677..89875937 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1
D03chromosomeD03:579949..580211 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1
CM018203.1chromosomeCM018203.1:99344501..99344761 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1
CM018217.1chromosomeCM018217.1:532386..532647 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1
D5_02chromosomeD5_02:491491..491752 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1
KI_06chromosomeKI_06:39997941..39998196 -Gossypioides kirkii genome ISU_v3
Chr02_CRI-A2_v1.0.a1chromosomeChr02_CRI-A2_v1.0.a1:624006..624266 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1
D10_02chromosomeD10_02:448756..449022 -Gossypium turneri (D10) genome NSF_v1_a2
CM016615.1chromosomeCM016615.1:567396..567655 -Gossypium australe (G2) genome CRI_v1.1
Dt_chr5chromosomeDt_chr5:17231744..17232006 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1
scaffold1588.1supercontigscaffold1588.1:17496..17756 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1
A02chromosomeA02:82884082..82884342 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1
D03chromosomeD03:535131..535393 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1
Ghir_A02chromosomeGhir_A02:107530133..107530393 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1
Ghir_D03chromosomeGhir_D03:541208..541470 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1
A02chromosomeA02:107731407..107731667 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1
D03chromosomeD03:541236..541498 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1
A02chromosomeA02:105187342..105187602 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1
D03chromosomeD03:538640..538902 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1
A02chromosomeA02:103768559..103768819 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1
D03chromosomeD03:543074..543336 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1
Dt03chromosomeDt03:560885..561146 -Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold16048supercontigscaffold16048:95037..95297 -Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold15604supercontigscaffold15604:201779..202040 -Gossypium barbadense (AD2) '3-79' genome HAU_v1
Gbar_A02chromosomeGbar_A02:99659305..99659565 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1
Gbar_D03chromosomeGbar_D03:525180..525441 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1
A02chromosomeA02:101595827..101596087 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1
D03chromosomeD03:532295..532556 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1
CM017611.1chromosomeCM017611.1:104573591..104573851 +Gossypium tomentosum (AD3) genome HGS_v1.1
CM017625.1chromosomeCM017625.1:525199..525461 -Gossypium tomentosum (AD3) genome HGS_v1.1
CM017637.1chromosomeCM017637.1:109360204..109360464 +Gossypium mustelinum (AD4) genome JGI_v1.1
CM017651.1chromosomeCM017651.1:589581..589842 -Gossypium mustelinum (AD4) genome JGI_v1.1
CM017689.1chromosomeCM017689.1:101748070..101748330 +Gossypium darwinii (AD5) genome HGS_v1.1
CM017703.1chromosomeCM017703.1:554750..555011 -Gossypium darwinii (AD5) genome HGS_v1.1
A02chromosomeA02:107674548..107674808 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1
D03chromosomeD03:583370..583632 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1
Chr02chromosomeChr02:92369701..92369961 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1
Chr02chromosomeChr02:101979283..101979543 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1
Chr02chromosomeChr02:501917..502178 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1
B_04chromosomeB_04:73369626..73369885 +Gossypium anomalum (B1) genome NSF_v1
Chr03chromosomeChr03:494580..494842 -Gossypium thurberi (D1-5) genome CRI_v1
chr03_6483751chromosomechr03_6483751:2286..2550 +Gossypium armourianum (D2-1) genome ISU_v1
Chr_03chromosomeChr_03:420676..420937 -Gossypium harknessii (D2-2) genome ISU_v1
Chr03chromosomeChr03:504996..505260 -Gossypium davidsonii (D3d-8) genome CRI_v1
Chr03chromosomeChr03:423970..424216 -Gossypium aridum (D4) genome ISU_v1
Chr03chromosomeChr03:376285..376546 -Gossypium gossypioides (D6) genome ISU_v1
E02chromosomeE02:285786..286035 -Gossypium stocksii (E1) genome NSF_v1
F02chromosomeF02:465079..465336 -Gossypium longicalyx (F1) genome NSF_v1
Chr02chromosomeChr02:139100744..139101004 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1
Germplasm
Stock NameType
AKA 8401accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1JLZM x ZJXSLS, F2 (2008)A_JZ_A02N/A71.5MUCS537-bView
2AD-genome wide Reference Map (2009)AD_ch17_Dt.03N/A163mucs0537View
3TM-1 x Hai-7124, BC1 (2007)AD_ch17_Dt.03N/A9.2MUCS537-320View
4TM-1 x Hai-7124, BC1 (2008)AD_ch17_Dt.03N/A90.36MUCS537-320View
5TM-1 x Hai-7124, BC1 (2012)AD_ch17_Dt.03N/A7.9MUCS537-320View
Sequence
>MUCS0537 ID=MUCS0537; Name=MUCS0537; organism=Gossypium arboreum; type=genetic_marker; length=261bp
TTGTTGAGAGTGGGGGAAAGAACATCGAAGTTGCTGTGATGACGAAGGAA
CATGGTCTTCGGCAGCTTGAAGAAGCTGAAATCGATGCCATTGCAGCCGA
GATCGAGGCAGAGAAGGAAGCAGCTGAGGCTGCAAAGAAGGCCCCTCCAA
AGGAAAAATGATGAAGCATCAACTGTTTAAGCTATCATTTGTTTCTTTCT
TTTTTCTTTTCTGGTCTGACTGCTTAATTTCTGAAATTGAAGTTTCATTT
GCCATTGTTGG