MUSS0070, MUSS0070 (genetic_marker) Gossypium arboreum

Marker Overview
NameMUSS0070
AliasMUSS070
Genbank IDN/A
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8401
Source TypeEST
Repeat MotifTCT(6)
PCR ConditionAnnealing temperature: 55
Primer 1MUSS070_F: CTTTTCCTCTGATGGATTTTGG
Primer 2MUSS070_R: AACGGAATGCAAGAGAATAAGG
Product Length247
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
A10chromosomeA10:16501355..16501601 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D10chromosomeD10:14826912..14827148 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018211.1chromosomeCM018211.1:15718216..15718462 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018224.1chromosomeCM018224.1:13666342..13666592 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:48731717..48731953 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_10chromosomeKI_10:38900390..38900641 +Gossypioides kirkii genome ISU_v3n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:112282303..112282549 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:50812326..50812561 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:24884272..24884512 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr11chromosomeDt_chr11:11729575..11729811 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A10chromosomeA10:15514676..15514922 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D10chromosomeD10:13747944..13748180 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A10chromosomeGhir_A10:15931538..15931784 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D10chromosomeGhir_D10:14081575..14081811 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A10chromosomeA10:15650233..15650479 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:13779691..13779927 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:15533173..15533419 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:16394482..16394728 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
D10chromosomeD10:14253191..14253427 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold1094supercontigscaffold1094:230256..230506 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold2159supercontigscaffold2159:31918..32164 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A10chromosomeGbar_A10:15989013..15989258 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D10chromosomeGbar_D10:13468106..13468356 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A10chromosomeA10:15801524..15801770 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
D10chromosomeD10:14022527..14022777 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017619.1chromosomeCM017619.1:15873813..15874053 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017632.1chromosomeCM017632.1:13929401..13929637 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017645.1chromosomeCM017645.1:16437213..16437453 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017697.1chromosomeCM017697.1:16069784..16070029 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017710.1chromosomeCM017710.1:14035151..14035402 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A10chromosomeA10:16485332..16485578 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
D10chromosomeD10:14382275..14382511 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:16654190..16654435 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:17070323..17070568 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:13414222..13414458 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:83540983..83541237 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:13714080..13714317 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:12222562..12222797 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr11_3122322chromosomeChr11_3122322:1947..2182 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:13873874..13874112 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:11397358..11397594 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:11251476..11251777 -Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:93486756..93486996 -Gossypium stocksii (E1) genome NSF_v1n/a
Chr10chromosomeChr10:133707339..133707598 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
AKA 8401accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch20_Dt.10N/A127muss0070View
2TM-1 x 3-79, RIL (2006)AD_ch20_Dt.10N/A56.3MUSS070View
3TM-1 x 3-79, RIL (2012)AD_ch20_Dt.10N/A71.98MUSS070View
4TM-1 x 3-79, RIL (2014)AD_ch20_Dt.10N/A72.8MUSS070View
5TM-1 x 3-79, RIL (2012.v3)AD_ch20_Dt.10N/A72.81MUSS070View
Sequence
>MUSS0070 ID=MUSS0070; Name=MUSS0070; organism=Gossypium arboreum; type=genetic_marker; length=247bp
CTTTTCCTCTGATGGATTTTGGAGATTTTTCCATTTACAGTAGAAGAACA
GTAAAAAAAAAAAAAGCTTCCAATTACGACCTAATCATTCGCCCACCGGG
TGCACCGCCGCACTGGCCACTCGCCACCTATTGGGTATTGAATTCAACTT
CTACCGCCTCCACTTCAACCCATTAATTTCTCTCTTCTTCTTCTTCTTCT
TCGGACAAAATTCTTGGAGAGTTTGCCTTATTCTCTTGCATTCCGTT