Gh501, Gh501 (genetic_marker) Gossypium hirsutum

Marker Overview


Name	Gh501
Genbank ID	DQ908440
Type	SSR
Species	Gossypium hirsutum
Germplasm	Tamcot Sphinx
Source Sequence	DQ908440
Source Type	genomic
Repeat Motif	AGA(21)
Primer 1	Gh501_F: CACAAATTGAAAGATACCCAGATCTTC
Primer 2	Gh501_R: TTCCTCATTCCCGTTCGATTTCAG
Publication	[view all]
Comment	Primer data obtained in 2008-01 from Hoffman, Steve M.

Cross References

External references for this genetic_marker


Database	Accession
DB:genbank	DQ908440

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
D13	chromosome	D13:53303496..53303697 +	Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1	n/a
CM018227.1	chromosome	CM018227.1:49289156..49289362 +	Gossypium barbadense (AD2) '3-79' genome HGS_v1.1	n/a
D10_13	chromosome	D10_13:50016329..50016498 +	Gossypium turneri (D10) genome NSF_v1_a2	n/a
Dt_chr13	chromosome	Dt_chr13:20085655..20085859 -	Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1	n/a
D13	chromosome	D13:49088492..49088696 +	Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1	n/a
Ghir_D13	chromosome	Ghir_D13:52268962..52269163 +	Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1	n/a
D13	chromosome	D13:53405831..53406035 +	Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1	n/a
D13	chromosome	D13:52434532..52434736 +	Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1	n/a
D13	chromosome	D13:49360257..49360461 +	Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1	n/a
Dt11	chromosome	Dt11:58014073..58014223 +	Gossypium barbadense (AD2) '3-79' genome HAU_v1	n/a
scaffold4290	supercontig	scaffold4290:402792..402942 +	Gossypium barbadense (AD2) '3-79' genome HAU_v1	n/a
scaffold33817	supercontig	scaffold33817:12278..12869 -	Gossypium barbadense (AD2) '3-79' genome HAU_v1	n/a
Gbar_D13	chromosome	Gbar_D13:48963781..48963972 +	Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1	n/a
Gbar_D11	chromosome	Gbar_D11:55942506..55942656 +	Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1	n/a
D13	chromosome	D13:50218058..50218250 +	Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1	n/a
CM017635.1	chromosome	CM017635.1:49968613..49968796 +	Gossypium tomentosum (AD3) genome HGS_v1.1	n/a
CM017661.1	chromosome	CM017661.1:53265705..53265900 +	Gossypium mustelinum (AD4) genome JGI_v1.1	n/a
CM017713.1	chromosome	CM017713.1:50286994..50287219 +	Gossypium darwinii (AD5) genome HGS_v1.1	n/a
D13	chromosome	D13:53469105..53469309 +	Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1	n/a
Chr13	chromosome	Chr13:47879691..47879937 +	Gossypium raimondii (D5) 'Grai D502' genome HAU_v1	n/a
Chr13	chromosome	Chr13:49340200..49340381 +	Gossypium thurberi (D1-5) genome CRI_v1	n/a
chr13	chromosome	chr13:36170093..36170281 +	Gossypium armourianum (D2-1) genome ISU_v1	n/a
Chr_13	chromosome	Chr_13:34137695..34137962 +	Gossypium harknessii (D2-2) genome ISU_v1	n/a
Chr13	chromosome	Chr13:51830236..51830439 +	Gossypium davidsonii (D3d-8) genome CRI_v1	n/a

Publications


Year	Publication
2007	Hoffman S, Yu J, Grum D, Xiao J, Kohel R, Pepper A. Identification of 700 New Microsatellite Loci from Cotton (G. hirsutum L.). Journal of cotton science. 2007; 11(4):208-241

Germplasm


Stock Name	Type
Tamcot Sphinx	accession

Relationships

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


Feature Name	Unique Name	Species	Type
DQ908440	DQ908440	Gossypium hirsutum	sequence_feature

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	Emian-22 x 3-79, BC1 (2011)	AD_ch13_At.13	N/A	94.33	Gh501b	View
2	(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)	AD_ch18_Dt.13	N/A	49.9	Gh501b	View
3	TM-1 x 3-79, RIL (2012)	AD_ch18_Dt.13	N/A	70.89	GH501	View
4	Yumian-1 x T586, RIL (2015)	AD_ch18_Dt.13	N/A	48.1	GH501	View
5	Yumian-1 x 7235, RIL (2015)	AD_ch24_Dt.08	N/A	24.5	GH501	View
6	DH962 X Ji Mian 5, F2 (2015)	AD_ch25_Dt.06	N/A	65.96	GH501	View
7	TM-1 x 3-79, RIL (2014)	AD_ch18_Dt.13	N/A	71.6	GH501	View
8	GX1135 x GX100-2, F2 (2013)	AD_ch18_Dt.13	N/A	0	GH501	View
9	GX1135 x GX100-2, RIL (2015)	AD_ch18_Dt.13	N/A	2.6	GH501	View
10	GX1135 x GX100-2, RIL (2016)	AD_ch18_Dt.13	N/A	2.6	GH501	View
11	DH962 x Ji Mian 5, RIL (2015)	AD_chU	N/A	19	GH501	View
12	CCRI-35 x Yumian-1, RIL (2015)	AD_ch18_Dt.13	N/A	35.2	GH501	View
13	(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)	AD_ch24_Dt.08	N/A	45.4	Gh501a	View
14	CCRI-35 x Yumian-1, RIL (2017)	AD_ch18_Dt.13	N/A	67.29	Gh501	View
15	TM-1 x 3-79, RIL (2012.v3)	AD_ch18_Dt.13	N/A	71.63	GH501	View
16	TM-1 x Hai-7124, BC1 (2012)	AD_ch18_Dt.13	N/A	63.5	Gh501-200	View

Sequence

>Gh501 ID=Gh501; Name=Gh501; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
CACAAATTGAAAGATACCCAGATCTTCATTTTGAAAAAAAATGTTAAAGA
TCAAAGATCTGATAGGAAAAAATAAAGAAGAAAAATGGAAGATATAAAAA
GGAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA
GAAGAAGAAGAAGAAAAAGAAGAGAAAATACCTGAAATCGAACGGGAATG
AGGAA

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Gh501, Gh501 (genetic_marker) Gossypium hirsutum