CGR6876, CGR6876 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCGR6876
Genbank IDGQ394308
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 33 B
Source SequenceMONCS1273
Source Typegenomic
PCR ConditionAnnealing temperature: 55
Primer 1CGR6876_F: TCACGTCGTAGAACTGGGAA
Primer 2CGR6876_R: ATTGAGAGCCAAACACAGGG
PolymorphismP_ CGR6876
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:genbankGQ394308
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D09chromosomeD09:43755196..43755366 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A09chromosomeA09:72090966..72091202 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018223.1chromosomeCM018223.1:41533890..41534083 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018210.1chromosomeCM018210.1:67604388..67604624 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_09chromosomeD5_09:35150253..35150407 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_09chromosomeKI_09:31615673..31615909 -Gossypioides kirkii genome ISU_v3n/a
Chr09_CRI-A2_v1.0.a1chromosomeChr09_CRI-A2_v1.0.a1:74739268..74739504 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_09chromosomeD10_09:8505477..8505713 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016622.1chromosomeCM016622.1:13030580..13030816 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1149.1supercontigscaffold1149.1:14134..14370 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D09chromosomeD09:41432434..41432604 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A09chromosomeA09:67011581..67011817 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D09chromosomeGhir_D09:43590785..43590951 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A09chromosomeGhir_A09:71837446..71837682 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D09chromosomeD09:43126819..43126989 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A09chromosomeA09:73461923..73462159 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D09chromosomeD09:43343531..43343701 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A09chromosomeA09:73599481..73599717 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D09chromosomeD09:41423200..41423366 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A09chromosomeA09:70230038..70230274 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At09chromosomeAt09:69683707..69683943 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10487supercontigscaffold10487:306773..306970 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10487supercontigscaffold10487:320701..321102 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3413supercontigscaffold3413:55538..55774 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D09chromosomeGbar_D09:42216744..42216937 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A09chromosomeGbar_A09:68037458..68037694 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D09chromosomeD09:44689540..44689733 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A09chromosomeA09:69535598..69535834 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:42444601..42444778 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017618.1chromosomeCM017618.1:69424293..69424529 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:43844073..43844267 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017657.1chromosomeCM017657.1:43808859..43809053 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017644.1chromosomeCM017644.1:72328586..72328822 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017709.1chromosomeCM017709.1:43006969..43007146 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017696.1chromosomeCM017696.1:69538748..69538984 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D09chromosomeD09:45037869..45038039 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A09chromosomeA09:75034414..75034650 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:77032224..77032460 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr09chromosomeChr09:41364206..41364360 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_09chromosomeB_09:60887784..60888020 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr06chromosomeChr06:41911478..41911655 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr06chromosomechr06:34468221..34468473 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_06chromosomeChr_06:28847078..28847314 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr06chromosomeChr06:43182468..43182654 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr06chromosomeChr06:31776145..31776388 -Gossypium aridum (D4) genome ISU_v1n/a
Chr06chromosomeChr06:23884604..23884876 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeChr06:29320677..29320977 -Gossypium lobatum (D7) genome ISU_v1n/a
F09chromosomeF09:61851251..61851491 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr06chromosomeCGR6876:1..616 .
Chr06:42502497..42503102 -		n/a
Chr6chromosomeCGR6876:1..616 .
Chr6:34729120..34729725 +		n/a
Germplasm
Stock NameType
Deltapine 33 Baccession
Relationships

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

Feature NameUnique NameSpeciesType
MONCS1273MONCS1273Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Yumian-1 x T586, RIL (2015)AD_ch23_Dt.09N/A59.4CGR6876View
2GX1135 x GX100-2, F2 (2013)AD_ch09_At.09N/A80CGR6876View
3GX1135 x GX100-2, RIL (2015)AD_ch09_At.09N/A129.3CGR6876View
4GX1135 x GX100-2, RIL (2016)AD_ch09_At.09N/A129.3CGR6876View
5GX1135 x VGX100-2, RIL (2016)AD_ch09_At.09N/A48.2CGR6876View
6CCRI-35 x Yumian-1, RIL (2015)AD_ch23_Dt.09N/A43.8CGR6876View
7(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch23_Dt.09N/A75.9MON_CGR6876View
8CCRI-35 x Yumian-1, RIL (2017)AD_ch23_Dt.09N/A142.46CGR6876View
9MGG-293-793, MAGIC (2018)AD_ch22_Dt.04N/A90.5CGR6876aView
10MGG-293-793, MAGIC (2018)AD_ch23_Dt.09N/A90.52MON_CGR6876aView
Sequence
>CGR6876 ID=CGR6876; Name=CGR6876; organism=Gossypium hirsutum; type=genetic_marker; length=171bp
TCACGTCGTAGAACTGGGAAATTACTGTTACTTCCAGGTTCCTGAGAAAG
TTGTGCATCTATATGGAGATATTGATGGATGGATAGATAGATAGATAGAT
AGATAGATAGATAGATAGATAGGAGAAGTGCCTATATCTGTTTATGTATG
ACCCTGTGTTTGGCTCTCAAT