CGR5494, CGR5494 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCGR5494
Genbank IDGQ393505
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 33 B
Source SequenceMONCS0470
Source Typegenomic
PCR ConditionAnnealing temperature: 55
Primer 1CGR5494_F: GCCATTGCAAAGGAGAGAGA
Primer 2CGR5494_R: ATCCAACGGCTCACGTTTAC
Publication[view all]
ContactMonsanto
CommentPrimer data obtained in 2009-05
Contact
NameDetails
Monsanto
Country:United States
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankGQ393505
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D09chromosomeD09:44255248..44255406 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018223.1chromosomeCM018223.1:41947527..41947693 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D10_09chromosomeD10_09:8042426..8042583 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016622.1chromosomeCM016622.1:12325348..12325493 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr6chromosomeDt_chr6:8385084..8385242 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D09chromosomeD09:41994945..41995103 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D09chromosomeGhir_D09:44042159..44042317 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D09chromosomeD09:43584854..43585012 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D09chromosomeD09:43803972..43804130 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D09chromosomeD09:41875275..41875433 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt09chromosomeDt09:44389831..44389997 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold5046supercontigscaffold5046:5161..5327 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D09chromosomeGbar_D09:42654518..42654684 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D09chromosomeD09:45135728..45135894 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:42888071..42888229 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:44286446..44286604 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017709.1chromosomeCM017709.1:43468069..43468225 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D09chromosomeD09:45503531..45503689 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:41795755..41795918 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr06chromosomeChr06:42354810..42354958 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr06chromosomechr06:34865279..34865427 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr06chromosomeChr06:32142201..32142440 +Gossypium aridum (D4) genome ISU_v1n/a
Chr06chromosomeChr06:24175758..24175904 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeChr06:29658562..29658820 +Gossypium lobatum (D7) genome ISU_v1n/a
E09chromosomeE09:11110753..11110913 -Gossypium stocksii (E1) genome NSF_v1n/a
Germplasm
Stock NameType
Deltapine 33 Baccession
Relationships

The following sequence_feature feature(s) derives from this genetic_marker:

Feature NameUnique NameSpeciesType
MONCS0470MONCS0470Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Yumian-1 x 7235, RIL (2015)AD_ch23_Dt.09N/A88CGR5494View
2CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch23_Dt.09N/A112.9CGR5494View
3Monsanto SSR Bin Map, (2009)AD_ch23_Dt.09N/A41CGR5494View
4DH962 X Ji Mian 5, F2 (2015)AD_ch09_At.09N/A87.2MON_CGR5494View
5DH962 X Ji Mian 5, F2 (2015)AD_ch23_Dt.09N/A87.2MON_CGR5494View
6DH962 x Ji Mian 5, RIL (2015)AD_ch09_At.09N/A39.6MON_CGR5494View
7DH962 x Ji Mian 5, RIL (2015)AD_ch23_Dt.09N/A39.6MON_CGR5494View
8TM-1 x Hai-7124, BC1 (2012)AD_ch23_Dt.09N/A110.2cgr5494-160View
Sequence
>CGR5494 ID=CGR5494; Name=CGR5494; organism=Gossypium hirsutum; type=genetic_marker; length=159bp
GCCATTGCAAAGGAGAGAGAGAGAGGGAGAGAGGGAGAGAGAGAGAGAGA
GGAGGGGAGTGGACACGAAAGTAGCAAAAAGACACTACTATAAAGTAAGC
TGAAGAGTTATAGACTGCAGGAAGGTTCGCAGTAAGGACGTAAACGTGAG
CCGTTGGAT