NAU3268, NAU3268 (genetic_marker) Gossypium raimondii

Marker Overview
NameNAU3268
AliasNAU3268=HAU1923
HAU1923
Genbank IDCO099558
TypeSSR
SpeciesGossypium raimondii
Source TypeEST
Repeat Motif(tca)6
PCR ConditionAnnealing temperature: 57
Primer 1NAU3268_F: GCAAGCCCTAACTACCAAAA
Primer 2NAU3268_R: TCCAGCAGCAGAAAAGTGTA
Restriction EnzymeNotI; EcoRV
Publication[view all]
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:genbankCO099558
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:58839725..58839945 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A04chromosomeA04:5536555..5536777 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:57794021..57794241 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018205.1chromosomeCM018205.1:5614006..5614228 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:52066637..52066857 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:46217348..46217569 +Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:90807068..90807290 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:5112271..5112490 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016618.1chromosomeCM016618.1:6949161..6949375 -Gossypium australe (G2) genome CRI_v1.1n/a
At_chr12chromosomeAt_chr12:42582254..42582476 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr9chromosomeDt_chr9:4850381..4850601 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:56564990..56565210 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A04chromosomeA04:5259792..5260014 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:57720778..57720998 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A04chromosomeGhir_A04:6485061..6485283 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:58541127..58541347 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:5597216..5597438 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:58385072..58385292 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:5455035..5455257 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:57553498..57553718 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A04chromosomeA04:5183026..5183248 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt05chromosomeDt05:56871438..56871658 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At04chromosomeAt04:4381933..4382153 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At04chromosomeAt04:4385396..4385618 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold16729supercontigscaffold16729:39939..40159 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold171supercontigscaffold171:45238..45458 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold171supercontigscaffold171:48701..48923 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:59095645..59095865 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A04chromosomeGbar_A04:5880029..5880251 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:60650582..60650808 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A04chromosomeA04:5898536..5898758 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:57449485..57449705 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017613.1chromosomeCM017613.1:6154739..6154961 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:59953503..59953723 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017639.1chromosomeCM017639.1:6614265..6614487 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:58729131..58729357 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017691.1chromosomeCM017691.1:5910915..5911146 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:60791082..60791302 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A04chromosomeA04:6085211..6085433 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:87948733..87948940 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:91583759..91583981 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:52927607..52927827 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:6182847..6183060 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:52936865..52937091 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:52876627..52877500 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:50627446..50627665 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:57014632..57014851 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:41118692..41118911 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:51071901..51072124 -Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:96903988..96904216 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:70805794..70806003 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr05chromosomeChr05:17309928..17310146 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr09chromosomeNAU3268:1..686 .
Chr09:68348994..68350076 -		n/a
Chr9chromosomeNAU3268:1..686 .
Chr9:42236491..42237573 +		n/a
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]
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1JLZM x ZJXSLS, F2 (2008)A_JZ_A05N/A45.9NAU3268View
2AD-genome wide Reference Map (2009)AD_ch19_Dt.05N/A298NAU3268View
3TM-1 x Hai-7124, BC1 (2007)AD_ch19_Dt.05N/A148.8NAU3268-530View
4TM-1 x Hai-7124, BC1 (2008)AD_ch19_Dt.05N/A147.35NAU3268-330View
5TM-1 x Hai-7124, BC1 (2012)AD_ch19_Dt.05N/A43.1NAU3268-330View
Sequence
>NAU3268 ID=NAU3268; Name=NAU3268; organism=Gossypium raimondii; type=genetic_marker; length=221bp
GCAAGCCCTAACTACCAAAAATCGAGCCTTCCATCCTTTTCCAAAACAAA
ATGTCTATGCTTCATCTGAGCTACTACCTTCAACCTCATCATCATCATCA
TCATCGGAGGCTCCATCTTCACCAACCATATCACTATCAGGTACCTGGTT
GGTTGCATCACCGGTGAGTTCATTGTCACTGAAGAGATCAGTTTTAACAG
GTACACTTTTCTGCTGCTGGA