BNL1721, BNL1721 (genetic_marker) Gossypium hirsutum

Marker Overview


Name	BNL1721
Genbank ID	N/A
Type	SSR
Species	Gossypium hirsutum
Germplasm	Deltapine 90
Source Sequence	BNL1721_orig
Source Type	genomic
Repeat Motif	(AG)17
PCR Condition	Annealing temperature: 55
Primer 1	BNL1721_F: TGTCGGAATCTTAAGACCGG
Primer 2	BNL1721_R: GCGCAGATCCTCTTACCAAA
Polymorphism	P_ BNL1721
Comment	Primer data obtained in 2000

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
D13	chromosome	D13:35837750..35837936 -	Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1	n/a
CM018227.1	chromosome	CM018227.1:32109958..32110131 -	Gossypium barbadense (AD2) '3-79' genome HGS_v1.1	n/a
D13	chromosome	D13:31695923..31696109 -	Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1	n/a
Ghir_D13	chromosome	Ghir_D13:35174890..35175074 -	Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1	n/a
D13	chromosome	D13:36551531..36551717 -	Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1	n/a
D13	chromosome	D13:35318249..35318435 -	Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1	n/a
D13	chromosome	D13:32288477..32288657 -	Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1	n/a
scaffold239	supercontig	scaffold239:235495..235668 +	Gossypium barbadense (AD2) '3-79' genome HAU_v1	n/a
Gbar_D13	chromosome	Gbar_D13:31893664..31893837 -	Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1	n/a
D13	chromosome	D13:33430096..33430269 -	Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1	n/a
CM017635.1	chromosome	CM017635.1:33385713..33385879 -	Gossypium tomentosum (AD3) genome HGS_v1.1	n/a
CM017661.1	chromosome	CM017661.1:35871043..35871209 -	Gossypium mustelinum (AD4) genome JGI_v1.1	n/a
CM017713.1	chromosome	CM017713.1:33226791..33226962 -	Gossypium darwinii (AD5) genome HGS_v1.1	n/a
D13	chromosome	D13:36218662..36218848 -	Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1	n/a

Germplasm


Stock Name	Type
Deltapine 90	accession

Relationships

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


Feature Name	Unique Name	Species	Type
BNL1721_orig	BNL1721_orig	Gossypium hirsutum	sequence_feature

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	Acala-44 x Pima S-7, F2 (2004)	AD_ch18_Dt.13	N/A	31	BNL1721	View
2	CCRI-36 x Hai-7124, F2 (2007)	AD_ch18_Dt.13	N/A	51.9	BNL1721	View
3	Emian-22 x 3-79, BC1 (2011)	AD_ch18_Dt.13	N/A	86.51	BNL1721	View
4	Guazuncho-2 x VH8-4602, consensus (2009)	AD_ch18_Dt.13	N/A	81.41	BNL1721	View
5	Handan-208 x Pima-90, F2:3 (2007)	AD_ch18_Dt.13	N/A	91.8	BNL1721	View
6	Palmeri x K-101, F2 (2007)	AD_ch18_Dt.13	N/A	81.7	BNL1721	View
7	TM-1 x 3-79, RIL (2006)	AD_ch18_Dt.13	N/A	92.4	BNL1721	View
8	TM-1 x 3-79, RIL (2012)	AD_ch18_Dt.13	N/A	44	BNL1721	View
9	Xinluzao-1 x Hai-7124, F2 (2008)	AD_ch18_Dt.13	N/A	80.4	BNL1721	View
10	Yumian-1 x T586, F2:7 (2008)	AD_ch18_Dt.13	N/A	13.9	BNL1721	View
11	Guazuncho-2 x VH8-4602, BC1 (2005)	AD_ch18_Dt.13	N/A	91.7	BNL1721	View
12	AD-genome wide Reference Map (2009)	AD_ch18_Dt.13	N/A	115	BNL1721	View
13	Yumian-1 x T586, RIL (2006)	AD_ch18_Dt.13	N/A	8.8	BNL1721	View
14	H18 x 3-79, F2 (2005)	AD_ch18_Dt.13	N/A	40.6	BNL1721	View
15	DH962 x Jinmian-6, F2 (2009)	AD_ch18_Dt.13	N/A	27.8	BNL1721	View
16	DH962 x Jinmian-6, F2 (2009)	AD_ch18_Dt.13	N/A	27.8	BNL1721	View
17	Yumian-1 x T586, RIL (2015)	AD_ch18_Dt.13	N/A	36	BNL1721	View
18	Yumian-1 x 7235, RIL (2015)	AD_ch18_Dt.13	N/A	22.5	BNL1721	View
19	DH962 X Ji Mian 5, F2 (2015)	AD_ch25_Dt.06	N/A	84.29	BNL1721	View
20	TM-1 x 3-79, RIL (2014)	AD_ch18_Dt.13	N/A	45.3	BNL1721	View
21	DH962 x Ji Mian 5, RIL (2015)	AD_chU	N/A	42.1	BNL1721	View
22	CCRI 12-4 x (AD)5-7, F2 (2015)	AD_ch18_Dt.13	N/A	59	BNL1721	View
23	SG 747 x Giza 75, BIL (2013)	AD_ch18_Dt.13	N/A	54.8	BNL1721	View
24	CCRI-35 x Yumian-1, RIL (2015)	AD_ch18_Dt.13	N/A	97.5	BNL1721	View
25	Monsanto SSR Bin Map, (2009)	AD_ch18_Dt.13	N/A	81	BNL1721	View
26	Vsg x (TM-1 x Hai-7124), DH (2005)	AD_ch18_Dt.13	N/A	61.4	BNL1721-195	View
27	TM-1 x Hai-7124, BC1 (2007)	AD_ch18_Dt.13	N/A	65.8	BNL1721-195	View
28	TM-1 x Hai-7124, BC1 (2008)	AD_ch18_Dt.13	N/A	66.29	BNL1721-195	View
29	TM-1 x Hai-7124, BC1 (2012)	AD_ch18_Dt.13	N/A	54.8	BNL1721-195	View
30	Yumian-1 x T586, RIL (2009)	AD_ch18_Dt.13	N/A	81.1	BNL1721/200y(C18)	View
31	GB713 x Nem-X, F2 (2011)	AD_ch18_Dt.13	N/A	27.6	BNL1721_178	View
32	CCRI-35 x Yumian-1, RIL (2017)	AD_ch18_Dt.13	N/A	50.03	BNL1721	View
33	TM-1 x 3-79, RIL (2012.v3)	AD_ch18_Dt.13	N/A	45.31	BNL1721	View
34	PD 94042 x (AD)4-08, F2 (2016)	AD_ch18_Dt.13	N/A	173.1	BNL1721	View

Sequence

>BNL1721 ID=BNL1721; Name=BNL1721; organism=Gossypium hirsutum; type=genetic_marker; length=187bp
TGTCGGAATCTTAAGACCGGACCATGGCCGGATTTAGGGCCTGAGAGAGA
GAGAGAGAGAGAGAGAGAGAGAGAGAGAGTTTTCTCTCTGTTTTTAAAGA
AAAAAATGATGAAACTGTTTTTTTTAGTTTATTTTTAATATTTATATTAA
GCATTAAACGGCGCCGTTTTGGTAAGAGGATCTGCGC

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BNL1721, BNL1721 (genetic_marker) Gossypium hirsutum