CIR0126, CIR0126 (genetic_marker) Gossypium hirsutum

Marker Overview


Name	CIR0126
Alias	CIR126
Genbank ID	AJ567074
Type	SSR
Species	Gossypium hirsutum
Germplasm	Guazuncho-2
Source Sequence	AJ567074
Source Type	genomic
Repeat Motif	(TG)7
PCR Condition	Annealing temperature: 55
Primer 1	CIR126_F: AATTATATGGCTTGCCTC
Primer 2	CIR126_R: GCCTGCAATTTGACTTA
Product Length	181
Publication	[view all]
Comment	Primer data obtained in 2005

Cross References

External references for this genetic_marker


Database	Accession
DB:genbank	AJ567074

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
A05	chromosome	A05:5662274..5662457 -	Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1	n/a
CM018206.1	chromosome	CM018206.1:5556645..5556827 -	Gossypium barbadense (AD2) '3-79' genome HGS_v1.1	n/a
Chr05_CRI-A2_v1.0.a1	chromosome	Chr05_CRI-A2_v1.0.a1:5597482..5597661 -	Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1	n/a
At_chr9	chromosome	At_chr9:52375474..52375655 +	Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1	n/a
A05	chromosome	A05:5228918..5229101 -	Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1	n/a
Ghir_A05	chromosome	Ghir_A05:5654199..5654382 -	Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1	n/a
A05	chromosome	A05:5634616..5634797 -	Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1	n/a
A05	chromosome	A05:6044602..6044783 -	Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1	n/a
At05	chromosome	At05:3318793..3318975 -	Gossypium barbadense (AD2) '3-79' genome HAU_v1	n/a
scaffold17271	supercontig	scaffold17271:17980..18162 -	Gossypium barbadense (AD2) '3-79' genome HAU_v1	n/a
Gbar_A05	chromosome	Gbar_A05:5303856..5304038 -	Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1	n/a
CM017692.1	chromosome	CM017692.1:5567244..5567423 -	Gossypium darwinii (AD5) genome HGS_v1.1	n/a
A05	chromosome	A05:5765210..5765393 -	Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1	n/a
Chr13	chromosome	Chr13:192597831..192598013 +	Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1	n/a

Publications


Year	Publication
2004	Nguyen TB, Giband M, Brottier P, Risterucci AM, Lacape JM. Wide coverage of the tetraploid cotton genome using newly developed microsatellite markers. Theoretical and applied genetics. 2004 Jun; 109(1):167-75

Germplasm


Stock Name	Type
Guazuncho-2	accession

Relationships

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


Feature Name	Unique Name	Species	Type
AJ567074	AJ567074	Gossypium hirsutum	sequence_feature

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	TM-1 x 3-79, RIL (2012)	AD_ch05_At.05	N/A	28.47	CIR126	View
2	(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)	AD_ch19_Dt.05	N/A	10.6	CIR126	View
3	Yumian-1 x 7235, RIL (2015)	AD_ch05_At.05	N/A	46.6	CIR126	View
4	TM-1 x 3-79, RIL (2014)	AD_ch05_At.05	N/A	173.9	CIR126	View
5	0-153 x sGK9708, RIL (2016)	AD_ch19_Dt.05	N/A	11.7	CIR126	View
6	CCRI-35 x Yumian-1, RIL (2015)	AD_ch05_At.05	N/A	95.4	CIR126	View
7	CCRI-35 x Yumian-1, RIL (2017)	AD_ch05_At.05	N/A	32.29	CIR126	View
8	TM-1 x 3-79, RIL (2012.v3)	AD_ch05_At.05	N/A	173.86	CIR126	View

Sequence

>CIR0126 ID=CIR0126; Name=CIR0126; organism=Gossypium hirsutum; type=genetic_marker; length=181bp
AATTATATGGCTTGCCTCAAAAATATGTGTGTGTGTGTGTTTTTTTATTC
TTTCAAAATTAAATCTTTTAAAATTCTTGATTTTTTTTTTACTTTTTGTT
TTCATTTTCCTTTTCTTAAAATGGTTTTTTTAATAACAAATAGTAGTTTA
AAAAAAAACTTGTATAAGTCAAATTGCAGGC

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CIR0126, CIR0126 (genetic_marker) Gossypium hirsutum