Experiment "Genome-wide patterns of nucleotide polymorphism in domest..."

Title	Genome-wide patterns of nucleotide polymorphism in domesticated rice
Design	SNP Assay
Polymorphism Type (1)	Sequencing
Allele Scoring Protocol (1)	Sequencing of direct PCR
PI(s)	Caicedo-A-L
Comments	Reference: Caicedo et al., 2007. Pervasive positive selection shapes genome-wide patterns of nucleotide polymorphism in domesticated Asian rice (Oryza sativa). Data for the STS paper was generated based up on TIGRv3 pseudomolecules. The data in this system is based upon version 4.

Germplasm (97)

Accession	Acc. Number	Seed Stock (Source)	Stock Source
9311	RA5531	RA5531	McCouch Lab	Show Allele Data
Ai-Chiao-Hong	IRGC51250	RA4967	IRRI	Show Allele Data
ARC 13829	IRGC42469	RA4947	IRRI	Show Allele Data
Arias	IRGC43325	RA4951	IRRI	Show Allele Data
Asse Y Pung	CIor461	RA5333	NSGC	Show Allele Data
Azucena	IRGC328	RA5535	IRRI	Show Allele Data
Badkalamkati	IRGC45011	RA4991	IRRI	Show Allele Data
Basmati 217	IRGC53637	RA4993	IRRI	Show Allele Data
Binulawan	IRGC26872	RA4871	IRRI	Show Allele Data
BJ1	IRGC45195	RA5345	IRRI	Show Allele Data
Cere Air	IRGC43369	RA4953	IRRI	Show Allele Data
Chau	IRGC56036	RA4974	IRRI	Show Allele Data
Chhote Dhan	IRGC58930	RA4978	IRRI	Show Allele Data
Chinese	PI431222	PI431222	NSGC	Show Allele Data
Cicih Beton	IRGC43372	RA4955	IRRI	Show Allele Data
DA13	IRGC5857	RA4887	IRRI	Show Allele Data
Davao	IRGC8244	RA4901	IRRI	Show Allele Data
Dee Geo Woo Gen	PI279131	RA5344	NSGC	Show Allele Data
Dhala Shaitta	PI180060	RA5361	NSGC	Show Allele Data
Dholi Boro	IRGC27513	RA4984	IRRI	Show Allele Data
Dom Sufid	IRGC12880	RA4929	IRRI	Show Allele Data
DV85	IRGC8839	RA5323	IRRI	Show Allele Data
Early Wataribune	CIor9738	RA5319	NSGC	Show Allele Data
Fortuna	CIor1344	RA5045	NSGC	Show Allele Data
Geumobyeo	PI597018	RA5394	NSGC	Show Allele Data
Gotak Gatik	IRGC43397	RA4959	IRRI	Show Allele Data
Guan-Yin-Tsan	IRGC51300	RA4968	IRRI	Show Allele Data
Gundil Kuning	IRGC16428	RA5297	IRRI	Show Allele Data
Gyehwa 3	PI584598	RA4997	NSGC	Show Allele Data
Heukgyeong	IRGC55530	RA4973	IRRI	Show Allele Data
Hsia-Chioh-Keh-Tu	IRGC8240	RA4898	IRRI	Show Allele Data
IR64	IRGC66970	IRGC66970	IRRI	Show Allele Data
Jambu	IRGC17757	RA5353	IRRI	Show Allele Data
JC1	IRGC9091	RA4917	IRRI	Show Allele Data
Jhona 349	IRGC6307	RA4979	IRRI	Show Allele Data
Kalukantha	IRGC7755	RA4983	IRRI	Show Allele Data
Kamenoo	PI403629	RA4990	NSGC	Show Allele Data
Kasalath	HO1195	RA5339	Kyushu University	Show Allele Data
Khao Dawk Mali 105	IRGC27748	RA4878	IRRI	Show Allele Data
Khao Hawm	IRGC24225	RA5030	IRRI	Show Allele Data
Koshihikari	IRGC10907	RA5337	IRRI	Show Allele Data
Kotobuki Mochi	IRGC2545	RA4882	IRRI	Show Allele Data
KU115	IRGC15046	RA5294	IRRI	Show Allele Data
Lal Aman	IRGC46202	RA4956	IRRI	Show Allele Data
Lemont	IRGC66756	RA4998	IRRI	Show Allele Data
Luk Takhar	IRGC58286	RA4977	IRRI	Show Allele Data
M-202	RA5539	RA5539	CCRRF	Show Allele Data
Mansaku	IRGC8191	RA5016	IRRI	Show Allele Data
Miriti	IRGC25901	RA4970	IRRI	Show Allele Data
Mudgo	IRGC6663	RA5282	IRRI	Show Allele Data
Nep Hoa Vang	IRGC40748	RA4945	IRRI	Show Allele Data
Nipponbare	IRGC12731	RA1729	IRRI	Show Allele Data
Norin 20	IRGC418	RA5302	IRRI	Show Allele Data
NPE 417	IRGC38692	RA4944	IRRI	Show Allele Data
NPE 844	IRGC38698	RA4948	IRRI	Show Allele Data
Oryza barthii-RA2740	IRGC104119	RA2740	IRRI	Show Allele Data
Oryza meridionalis-RA2661	IRGC101148	RA2661	IRRI	Show Allele Data
Oryza nivara-RA154	IRGC105706	RA154	IRRI	Show Allele Data
Oryza rufipogon-RA162	IRGC105404	RA162	IRRI	Show Allele Data
Oryza rufipogon-RA171	IRGC106163	RA171	IRRI	Show Allele Data
Oryza rufipogon-RA2662	IRGC106262	RA2662	IRRI	Show Allele Data
Oryza rufipogon-RA2747	IRGC105491	RA2747	IRRI	Show Allele Data
Oryza rufipogon-RA2762	IRGC106144	RA2762	IRRI	Show Allele Data
Oryza rufipogon-RA4782	W1952	RA4782	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4783	W1953(-3)	RA4783	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4784	W1955	RA4784	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4785	W1956(-2)	RA4785	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4786	W1957	RA4786	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4790	W1961(-1)	RA4790	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4792	W1963	RA4792	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4794	W1965(-2)	RA4794	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4814	R1	RA4814	Germplasm Collection in Mishima, Japan	Show Allele Data
Oryza rufipogon-RA4815	R2(a)	RA4815	SNU	Show Allele Data
Oryza rufipogon-RA4816	R3(a)	RA4816	SNU	Show Allele Data
Oryza rufipogon-RA4820	R7(b)	RA4820	SNU	Show Allele Data
Oryza rufipogon-RA4823	R10(a)	RA4823	SNU	Show Allele Data
Oryza rufipogon-RA4825	R12(c)	RA4825	SNU	Show Allele Data
Oryza rufipogon-RA4826	R13	RA4826	SNU	Show Allele Data
Oryza rufipogon-RA4828	R15(b)	RA4828	SNU	Show Allele Data
Padi Kasalle	IRGC8261	RA4905	IRRI	Show Allele Data
Pankhari 203	IRGC5999	RA4888	IRRI	Show Allele Data
Pao-Tou-Hung	IRGC51400	RA4992	IRRI	Show Allele Data
Phudugey	IRGC32399	RA4939	IRRI	Show Allele Data
Pin Kaeo	IRGC5803	RA4883	IRRI	Show Allele Data
Popot 165	IRGC43545	RA4987	IRRI	Show Allele Data
Rathuwee	IRGC8952	RA4911	IRRI	Show Allele Data
Shinriki	CIor1642	RA5327	NSGC	Show Allele Data
Shoemed	PI392539	RA5123	NSGC	Show Allele Data
Sinampaga Selection	IRGC3967	RA5396	IRRI	Show Allele Data
Suweon 362	PI597021	RA5338	NSGC	Show Allele Data
Ta Hung Ku	IRGC1107	RA5029	IRRI	Show Allele Data
Taducan	PI280681	PI280681	NSGC	Show Allele Data
Tainan Iku 487	PI215936	PI215936	NSGC	Show Allele Data
Taipei 309	PI366153	RA5397	NSGC	Show Allele Data
Trembese	IRGC43675	RA4988	IRRI	Show Allele Data
WC6	CIor5309	RA5288	NSGC	Show Allele Data
Yelaik Meedon	IRGC33888	RA4940	IRRI	Show Allele Data

Marker Name
Markers 1 to 25 of 103. of 5 \| Next
STS001	Show Allele Data
STS002	Show Allele Data
STS003	Show Allele Data
STS004	Show Allele Data
STS005	Show Allele Data
STS006	Show Allele Data
STS007	Show Allele Data
STS008	Show Allele Data
STS009	Show Allele Data
STS010	Show Allele Data
STS011	Show Allele Data
STS012	Show Allele Data
STS014	Show Allele Data
STS015	Show Allele Data
STS016	Show Allele Data
STS017	Show Allele Data
STS018	Show Allele Data
STS019	Show Allele Data
STS021	Show Allele Data
STS022	Show Allele Data
STS023	Show Allele Data
STS024	Show Allele Data
STS027	Show Allele Data
STS028	Show Allele Data
STS029	Show Allele Data