NAU3550, NAU3550 (genetic_marker) Gossypium raimondii

Marker Overview
NameNAU3550
Genbank IDCO111476
TypeSSR
SpeciesGossypium raimondii
Source TypeEST
Repeat Motif(tgt)6
PCR ConditionAnnealing temperature: 57
Primer 1NAU3550_F: CCGATTTCTTCATTTGCTTT
Primer 2NAU3550_R: CAAATACCCACCTCAAAACC
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:genbankCO111476
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D07chromosomeD07:1309192..1309403 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A07chromosomeA07:1363179..1363390 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018221.1chromosomeCM018221.1:1140407..1140612 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018208.1chromosomeCM018208.1:1560891..1561102 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:1169708..1169919 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:36307126..36307340 +Gossypioides kirkii genome ISU_v3n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:1447564..1447775 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:52645533..52645750 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016620.1chromosomeCM016620.1:114238568..114238779 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold666.1supercontigscaffold666.1:427800..428011 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold4168_D07supercontigscaffold4168_D07:93898..94109 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:1319584..1319795 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:1325598..1325809 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:1350867..1351078 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:1264876..1265087 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:1282197..1282408 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:1296480..1296691 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:1355307..1355518 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:1234850..1235061 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:1374253..1374464 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold5365supercontigscaffold5365:24336..24541 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold514supercontigscaffold514:43787..43998 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D07chromosomeGbar_D07:1286305..1286510 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A07chromosomeGbar_A07:1421630..1421841 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:1263320..1263525 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A07chromosomeA07:1346912..1347123 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:160582..160793 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:1267406..1267617 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:1310825..1311036 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:1329760..1329971 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:1274267..1274472 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017694.1chromosomeCM017694.1:1445850..1446061 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:1345144..1345355 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:1380688..1380899 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:1386209..1386420 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:1422996..1423207 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:52361635..52361846 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:1529172..1529383 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:1179264..1179487 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:1223174..1223379 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:1187937..1188163 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:1247833..1248053 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:925178..925392 -Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:906860..907077 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:1050526..1050737 -Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:92922836..92923050 +Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:1261169..1261380 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:1293235..1293443 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr01chromosomeNAU3550:1..613 .
Chr01:1152160..1152772 +		n/a
Chr1chromosomeNAU3550:1..613 .
Chr1:34535068..34535680 -		n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch16_Dt.07N/A3NAU3550View
2Emian-22 x 3-79, BC1 (2011)AD_ch16_Dt.07N/A141.91NAU3550View
3SG 747 x Giza 75, BIL (2013)AD_ch16_Dt.07N/A0NAU3550View
4TM-1 x Hai-7124, BC1 (2007)AD_ch16_Dt.07N/A8NAU3550-275View
5TM-1 x Hai-7124, BC1 (2008)AD_ch16_Dt.07N/A7.86NAU3550-275View
6H16 x T586, F2 (2009)AD_ch16_Dt.07N/A7.9NAU3550-275View
7TM-1 x Hai-7124, BC1 (2012)AD_ch16_Dt.07N/A123.6NAU3550-275View
Sequence
>NAU3550 ID=NAU3550; Name=NAU3550; organism=Gossypium raimondii; type=genetic_marker; length=212bp
CCGATTTCTTCATTTGCTTTACGTTGTTGTTGTTGTTGTTGTGCTCGGGT
TTGGTTGAACCGGGTTCATCTGTTTCAGGGTTGTGAACCGTTCCTGTGTT
TAGTTTACCGGAGTCGGATCTGCAAAAGGAGGTCACTCGCTGTAACAACG
ACGGTGCTCGGGTTAGGGACGGTTCGACGTAAACTGGGTCCGGGTTTTGA
GGTGGGTATTTG