NAU1246, NAU1246 (genetic_marker) Gossypium arboreum

Marker Overview
NameNAU1246
Genbank IDBF274421
TypeSSR
SpeciesGossypium arboreum
GermplasmAKA 8400
AKA 8400
Source TypeEST
Repeat Motif(TCTTT)5
PCR ConditionAnnealing temperature: 57
Primer 1NAU1246_F: TGCGCACTAAAGAAAAAGAA
Primer 2NAU1246_R: GAACAAAATGAATACCCCACA
Product Length191
Restriction EnzymeEcoRI; XhoI
ContactZhang, Tian-Zhen
CommentPrimer data obtained in 2007-05
Contact
NameDetails
Zhang, Tian-Zhen
First name:Tian-Zhen
Last name:Zhang
Title:Professor
Institution:Zhejiang University
Address:College of Agriculture and Biotechnology, Zhejiang University, Hangzhou , 310058 , Zhejiang , China
Country:China
Email:cotton@zju.edu.cn
Phone:+86 571 88982971
Fax:+86 571 88982971
Keywords:cotton genetics and genomics, and breeding
Last update:18-Mar-2022
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankBF274421
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D03chromosomeD03:191957..192152 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A02chromosomeA02:90215363..90215543 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018217.1chromosomeCM018217.1:158562..158742 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018203.1chromosomeCM018203.1:99688929..99689119 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_02chromosomeD5_02:139179..139368 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr02_CRI-A2_v1.0.a1chromosomeChr02_CRI-A2_v1.0.a1:290632..290822 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_02chromosomeD10_02:145784..145969 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016615.1chromosomeCM016615.1:187374..187551 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1977.1supercontigscaffold1977.1:148451..148646 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold2568.1supercontigscaffold2568.1:71621..71801 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D03chromosomeD03:149318..149513 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A02chromosomeA02:83219674..83219854 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D03chromosomeGhir_D03:153656..153851 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A02chromosomeGhir_A02:107869378..107869558 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D03chromosomeD03:153820..154015 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:108063693..108063873 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D03chromosomeD03:150645..150840 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:105526794..105526974 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D03chromosomeD03:155453..155648 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A02chromosomeA02:104108146..104108326 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold10741supercontigscaffold10741:65040..65230 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10741supercontigscaffold10741:57077..57257 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold1758supercontigscaffold1758:178132..178312 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D03chromosomeGbar_D03:150712..150902 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D03chromosomeD03:147613..147793 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A02chromosomeA02:101920863..101921053 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017625.1chromosomeCM017625.1:155778..155973 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017611.1chromosomeCM017611.1:104901733..104901923 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017651.1chromosomeCM017651.1:179504..179694 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017637.1chromosomeCM017637.1:109701518..109701718 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017703.1chromosomeCM017703.1:151881..152061 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017689.1chromosomeCM017689.1:102071561..102071751 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D03chromosomeD03:167572..167767 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A02chromosomeA02:108014214..108014394 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr02chromosomeChr02:92719363..92719553 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr02chromosomeChr02:102312760..102312950 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr02chromosomeChr02:149986..150176 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_04chromosomeB_04:73757572..73757757 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr03chromosomeChr03:159569..159754 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr03chromosomechr03:115169..115354 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_03chromosomeChr_03:131360..131545 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr03chromosomeChr03:154080..154270 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr03chromosomeChr03:116535..116725 +Gossypium aridum (D4) genome ISU_v1n/a
Chr03chromosomeChr03:100029..100204 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr03_6365054chromosomeChr03_6365054:7102..7292 +Gossypium lobatum (D7) genome ISU_v1n/a
E02chromosomeE02:88257603..88257793 -Gossypium stocksii (E1) genome NSF_v1n/a
F02chromosomeF02:136645..136832 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr02chromosomeChr02:139428807..139429004 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
AKA 8400accession
AKA 8400accession
Image
File NameLegend
45_FISH_GEN-178-1117_fig2.jpgBAC clones and their corresponding genetic markers of the 22 probes according to FISH signal patterns in Figure 1. [Image from Wang et al., 2008, GEN-178-1117]
46_FISH_GEN-178-1117_fig3.jpgTwo BAC translocations involving two chromosome pairs of At2 and A3 and At4 and A5 between G. arboreum and A-subgenome of G. hirsutum. [Image from Wang et al., 2008, GEN-178-1117]
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI-36 x Hai-7124, F2 (2007)AD_ch02_At.02N/A1.9NAU1246View
2Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch02_At.02N/A178.6NAU1246View
3Guazuncho-2 x VH8-4602, consensus (2009)AD_ch02_At.02N/A102.73NAU1246View
4Guazuncho-2 x VH8-4602, RIL (2009)AD_ch02_At.02N/A76.85NAU1246View
5AD-genome wide Reference Map (2009)AD_ch02_At.02N/A4NAU1246View
6CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch02_At.02N/A174.7NAU1246View
7TM-1 x Hai-7124, BC1 (2007)AD_ch02_At.02N/A4.5NAU1246-200View
8TM-1 x Hai-7124, BC1 (2008)AD_ch02_At.02N/A110.08NAU1246-200View
9TM-1 x Hai-7124, BC1 (2012)AD_ch02_At.02N/A106.2NAU1246-200View
Sequence
>NAU1246 ID=NAU1246; Name=NAU1246; organism=Gossypium arboreum; type=genetic_marker; length=191bp
TGCGCACTAAAGAAAAAGAAGATAAATGATATCTCCTATATAGCATATAA
TATTGTTTTGGATTAAAAAGGTTTGATTTTTTACATATATGTCCATGTTT
GTATAGCAGTGAAAATCAAGAGTATTTGACTGAAGTGAAAAATTCTCTTT
TCTTTTCTTTTCTTTTCTTTTGTGGGGTATTCATTTTGTTC