HAU0309, HAU0309 (genetic_marker) gossypium spp

Marker Overview


Name	HAU0309
Genbank ID	N/A
Type	SSR
Species	Gossypium spp.
Source Type	EST
Repeat Motif	(AT)15
PCR Condition	Annealing temperature: 55.3
Primer 1	HAU0309_F: GGAATAGGCATGAATTCCAC
Primer 2	HAU0309_R: ACATCAAACCAGATCATTCA
Product Length	247
Publication	[view all]
Comment	Primer data obtained in 2012

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
A01	chromosome	A01:18330138..18330370 -
CM018202.1	chromosome	CM018202.1:16711145..16711373 -
Chr04_CRI-A2_v1.0.a1	chromosome	Chr04_CRI-A2_v1.0.a1:88478421..88478665 -
A01	chromosome	A01:16916691..16916923 -
Ghir_A01	chromosome	Ghir_A01:17532379..17532611 -
A01	chromosome	A01:17002868..17003100 -
A01	chromosome	A01:17430752..17430984 -
A01	chromosome	A01:17298566..17298798 -
Dt01	chromosome	Dt01:13331274..13331484 -
At01	chromosome	At01:17966452..17966680 -
scaffold18881	supercontig	scaffold18881:47208..47418 -
scaffold11760	supercontig	scaffold11760:306689..306917 -
Gbar_D01	chromosome	Gbar_D01:14169965..14170175 -
Gbar_A01	chromosome	Gbar_A01:16858580..16858808 -
A01	chromosome	A01:16728251..16728479 -
CM017610.1	chromosome	CM017610.1:18051533..18051763 -
CM017636.1	chromosome	CM017636.1:17194813..17195043 -
CM017688.1	chromosome	CM017688.1:16865929..16866157 -
A01	chromosome	A01:17455895..17456127 -
Chr01	chromosome	Chr01:17622414..17622650 -
Chr01	chromosome	Chr01:18913687..18913933 -
Chr01	chromosome	Chr01:12890641..12890876 -
B_01	chromosome	B_01:19349565..19349795 -
Chr02	chromosome	Chr02:13894536..13894775 -
Chr_02	chromosome	Chr_02:10669303..10669535 -
Chr02	chromosome	Chr02:13313140..13313372 -
Chr02	chromosome	Chr02:11962220..11962450 -
E01	chromosome	E01:20541668..20541901 -
F01	chromosome	F01:15328699..15328929 -

Publications


Year	Publication
2011	Yu Y, Yuan D, Liang S, Li X, Wang X, Lin Z, Zhang X. Genome structure of cotton revealed by a genome-wide SSR genetic map constructed from a BC1 population between gossypium hirsutum and G. barbadense. BMC genomics. 2011; 12:15

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	Emian-22 x 3-79, BC1 (2011)	AD_ch01_At.01	N/A	15.18	HAU0309	View
2	TM-1 x Hai-7124, BC1 (2012)	AD_ch01_At.01	N/A	72.4	HAU0309-250	View
3	TM-1 x Hai-7124, BC1 (2012)	AD_ch15_Dt.01	N/A	80.2	HAU0309-220	View

Sequence

>HAU0309 ID=HAU0309; Name=HAU0309; organism=Gossypium spp.; type=genetic_marker; length=247bp
GGAATAGGCATGAATTCCACAGTACCCAAAGTGTATGTTTGTTCTCTTTT
TGGATTGCTTGTCCATGTAAGAGTTGGGCGTCCCATAGTGAAATTGTGAA
ATAATGAAGAATCGAGCACCCTTAAGACTGTTATTTGAGGCAAATGTAGG
AGGGTTTTATCTTTGTCAATATATATATATATATATATATATATATATTT
GGGCAGTATCTTTTATATGAAAATCTATGAATGATCTGGTTTGATGT

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HAU0309, HAU0309 (genetic_marker) gossypium spp