NBRI_e1783, NBRI_e1783 (genetic_marker) Gossypium herbaceum

Marker Overview
NameNBRI_e1783
Genbank IDHQ527317
TypeSSR
SpeciesGossypium herbaceum
GermplasmVagad
Source TypeEST
Repeat Motif(CTA)5
PCR ConditionAnnealing temperature: 57
Primer 1NBRI_e1783_F: ATTGCTCAACCGAAACAAGC
Primer 2NBRI_e1783_R: TGGTGGGACAACTCTGTGAA
Product Length164
Publication[view all]
ContactLin, Zhong-Xu
CommentPrimer data obtained in 2012
Contact
NameDetails
Lin, Zhong-Xu
First name:Zhong-Xu
Last name:Lin
Address:shizishan 1, wuhan, hubei 430070
Country:China
Email:linzhongxu@mail.hzau.edu.cn
Phone:+86 027 87283955
Last update:5-Mar-2007
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankHQ527317
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D01chromosomeD01:46931752..46931912 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A08chromosomeA08:76148248..76148411 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018215.1chromosomeCM018215.1:45647176..45647342 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018202.1chromosomeCM018202.1:74018715..74018878 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_01chromosomeD5_01:40527058..40527218 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_01chromosomeKI_01:29786954..29787113 +Gossypioides kirkii genome ISU_v3n/a
Chr02_CRI-A2_v1.0.a1chromosomeChr02_CRI-A2_v1.0.a1:65472159..65472322 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_01chromosomeD10_01:16870230..16870390 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016614.1chromosomeCM016614.1:101138923..101139082 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr2chromosomeDt_chr2:5746286..5746446 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr2chromosomeAt_chr2:22421241..22421404 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold133_A01supercontigscaffold133_A01:404546..404709 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D01chromosomeD01:43944382..43944542 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Scaffold679supercontigScaffold679:74418..74578 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A01chromosomeGhir_A01:77640753..77640916 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D01chromosomeD01:47526322..47526482 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A01chromosomeA01:78324161..78324324 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D01chromosomeD01:46986846..46987006 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A01chromosomeA01:77147949..77148112 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D01chromosomeD01:44449846..44450003 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A01chromosomeA01:74069450..74069613 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold53supercontigscaffold53:259913..260076 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold18295supercontigscaffold18295:86631..86797 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D01chromosomeGbar_D01:45862936..45863102 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A01chromosomeGbar_A01:76076575..76076738 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D01chromosomeD01:46593767..46593933 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A01chromosomeA01:76103446..76103609 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017623.1chromosomeCM017623.1:46668479..46668639 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017610.1chromosomeCM017610.1:74451828..74451991 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017649.1chromosomeCM017649.1:47834557..47834717 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017636.1chromosomeCM017636.1:80535763..80535926 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017701.1chromosomeCM017701.1:46082457..46082623 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017688.1chromosomeCM017688.1:72602865..72603028 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D01chromosomeD01:47509896..47510056 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A01chromosomeA01:79294138..79294301 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:92117500..92117663 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr02chromosomeChr02:35990554..35990717 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr01chromosomeChr01:36051448..36051608 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_01chromosomeB_01:71494547..71494707 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr02chromosomeChr02:44347231..44347391 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr02chromosomechr02:33759311..33759611 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_02chromosomeChr_02:30750652..30750812 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr02chromosomeChr02:44758894..44759054 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr02chromosomeChr02:26241946..26242106 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr02chromosomeChr02:32078174..32078337 +Gossypium lobatum (D7) genome ISU_v1n/a
E01chromosomeE01:83616507..83616679 +Gossypium stocksii (E1) genome NSF_v1n/a
F01chromosomeF01:42904047..42904213 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr01chromosomeChr01:43884141..43884300 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr02chromosomeNBRI_e1783:7..265 .
Chr02:46376044..46376298 +		n/a
Chr2chromosomeNBRI_e1783:7..265 .
Chr2:18081467..18081721 -		n/a
Germplasm
Stock NameType
Vagadaccession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1DH962 X Ji Mian 5, F2 (2015)AD_ch01_At.01N/A25.99NBRI_HQ527317View
2DH962 X Ji Mian 5, F2 (2015)AD_ch15_Dt.01N/A25.99NBRI_HQ527317View
3DH962 x Ji Mian 5, RIL (2015)AD_ch15_Dt.01N/A20.2NBRI_HQ527317View
Sequence
>NBRI_e1783 ID=NBRI_e1783; Name=NBRI_e1783; organism=Gossypium herbaceum; type=genetic_marker; length=164bp
ATTGCTCAACCGAAACAAGCTAACACCTATTACCAAGTTTCTTCGTTCTT
GCTTCCATTTCTACTACTACTACTACCACCATGGAGTGCTCTAATTCTAG
CAACACGGAGCAGCCTCAAACCTGCCTTGAAATAACCATGGAGGTTCACA
GAGTTGTCCCACCA