BNL1408, BNL1408 (genetic_marker) Gossypium hirsutum

Marker Overview


Name	BNL1408
Genbank ID	N/A
Type	SSR
Species	Gossypium hirsutum
Germplasm	Deltapine 90
Source Sequence	BNL1408_orig
Source Type	genomic
Repeat Motif	(AG)17
PCR Condition	Annealing temperature: 55
Primer 1	BNL1408_F: AAGGGAGAGAAACGGAGAGC
Primer 2	BNL1408_R: CATTTCACCTCTCCCACCAC
Polymorphism	P_ BNL1408
Comment	Primer data obtained in 2000

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
D11	chromosome	D11:53940375..53940584 -
A11	chromosome	A11:89521903..89522101 -
CM018225.1	chromosome	CM018225.1:51424050..51424263 -
CM018212.1	chromosome	CM018212.1:89699429..89699617 -
Chr11_CRI-A2_v1.0.a1	chromosome	Chr11_CRI-A2_v1.0.a1:27673091..27673294 +
At_chr10	chromosome	At_chr10:25857141..25857339 -
At_chr1	chromosome	At_chr1:40637676..40637864 -
D11	chromosome	D11:49093445..49093658 -
A11	chromosome	A11:70236330..70236538 -
Ghir_D11	chromosome	Ghir_D11:53991951..53992159 -
D11	chromosome	D11:53445562..53445821 -
A11	chromosome	A11:97060748..97060946 -
D11	chromosome	D11:53907515..53907724 -
A11	chromosome	A11:94280963..94281161 -
D11	chromosome	D11:51214559..51214772 -
A11	chromosome	A11:91469066..91469264 -
scaffold16101	supercontig	scaffold16101:89779..89967 +
Gbar_D11	chromosome	Gbar_D11:51167085..51167294 -
Gbar_A11	chromosome	Gbar_A11:87848981..87849169 -
D11	chromosome	D11:54185757..54185952 -
A11	chromosome	A11:91057430..91057618 -
CM017620.1	chromosome	CM017620.1:94959456..94959652 -
CM017646.1	chromosome	CM017646.1:101550539..101550741 -
CM017711.1	chromosome	CM017711.1:51106292..51106495 -
CM017698.1	chromosome	CM017698.1:89960850..89961040 -
D11	chromosome	D11:53765859..53766068 -
A11	chromosome	A11:98830732..98830930 -
Chr11	chromosome	Chr11:102620080..102620299 -
Chr11	chromosome	Chr11:100869712..100869915 -

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
BNL1408_orig	BNL1408_orig	Gossypium hirsutum	sequence_feature

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	Guazuncho-2 x VH8-4602, BC1 (2005)	AD_ch11_At.11	N/A	86.7	BNL1408	View
2	Guazuncho-2 x VH8-4602, consensus (2009)	AD_ch11_At.11	N/A	73.64	BNL1408	View
3	Handan-208 x Pima-90, F2:3 (2007)	AD_ch11_At.11	N/A	236.2	BNL1408	View
4	AD-genome wide Reference Map (2009)	AD_ch11_At.11	N/A	114	BNL1408	View
5	TM-1 x 3-79, RIL (2006)	AD_ch11_At.11	N/A	62.6	BNL1408	View
6	TM-1 x 3-79, RIL (2012)	AD_ch11_At.11	N/A	111.2	BNL1408	View
7	Xinluzao-1 x Hai-7124, F2 (2008)	AD_ch11_At.11	N/A	100.7	BNL1408	View
8	Yumian-1 x T586, F2:3 (2005)	AD_ch05_At.05	N/A	43.6	BNL1408	View
9	Emian-22 x 3-79, BC1 (2011)	AD_ch11_At.11	N/A	84.1	BNL1408	View
10	AD-genome wide Reference Map (2009)	AD_ch21_Dt.11	N/A	153	BNL1408	View
11	Yumian-1 x T586, F2:7 (2008)	AD_ch21_Dt.11	N/A	47.7	BNL1408	View
12	Yumian-1 x T586, RIL (2006)	AD_ch21_Dt.11	N/A	22.5	BNL1408	View
13	NemX x SJ-2, RIL (2005)	AD_ch11_At.11	N/A	208.6	BNL1408	View
14	Yumian-1 x T586, RIL (2015)	AD_ch21_Dt.11	N/A	136	BNL1408	View
15	TM-1 x 3-79, RIL (2014)	AD_ch11_At.11	N/A	114.1	BNL1408	View
16	TM-1 x (TX-0256 + TX-1046), CSIL (2016)	AD_ch21_Dt.11	N/A	122.8	BNL1408	View
17	Emian-22 x 3-79, BC1 (2015)	AD_ch11_At.11	N/A	150	BNL1408	View
18	CCRI 12-4 x (AD)5-7, F2 (2015)	AD_ch11_At.11	N/A	186.4	BNL1408	View
19	Monsanto SSR Bin Map, (2009)	AD_ch11_At.11	N/A	101	BNL1408	View
20	SG 747 x Giza 75, BIL (2013)	AD_ch11_At.11	N/A	9.3	BNL1408a	View
21	Monsanto SSR Bin Map, (2009)	AD_ch11_At.11	N/A	101	BNL1408a	View
22	TM-1 x Hai-7124, BC1 (2007)	AD_ch11_At.11	N/A	70.1	BNL1408-200	View
23	TM-1 x Hai-7124, BC1 (2008)	AD_ch11_At.11	N/A	70.23	BNL1408-200	View
24	Vsg x (TM-1 x Hai-7124), DH (2005)	AD_ch11_At.11	N/A	67.6	BNL1408-200	View
25	TM-1 x Hai-7124, BC1 (2012)	AD_ch11_At.11	N/A	92.3	BNL1408-200	View
26	TM-1 x Hai-7124, BC1 (2007)	AD_ch21_Dt.11	N/A	75	BNL1408-430	View
27	TM-1 x Hai-7124, BC1 (2008)	AD_ch21_Dt.11	N/A	67.16	BNL1408-430	View
28	TM-1 x Hai-7124, BC1 (2012)	AD_ch21_Dt.11	N/A	113.4	BNL1408-430	View
29	Vsg x (TM-1 x Hai-7124), DH (2005)	AD_ch11_At.11	N/A	66.2	BNL1408-195	View
30	Vsg x (TM-1 x Hai-7124), DH (2005)	AD_ch21_Dt.11	N/A	97	BNL1408-400	View
31	TM-1 x Hai-7124, BC1 (2012)	AD_ch21_Dt.11	N/A	138.1	BNL1408-400	View
32	Vsg x (TM-1 x Hai-7124), DH (2005)	AD_ch21_Dt.11	N/A	134.5	BNL1408-215	View
33	Yumian-1 x T586, RIL (2009)	AD_ch21_Dt.11	N/A	51.1	BNL1408/200y(C11)	View
34	Yumian-1 x T586, F2:3 (2005.v0)	AD_ch05_At.05	N/A	43.6	BNL1408(C5,C18,D03)	View
35	TM-1 x 3-79, RIL (2011)	AD_ch11_At.11	N/A	29.4	BNL1408_207/197	View
36	SG 747 x Giza 75, BIL (2013)	AD_ch21_Dt.11	N/A	11.1	BNL1408b	View
37	TM-1 x 3-79, RIL (2012.v3)	AD_ch11_At.11	N/A	114.08	BNL1408	View
38	PD 94042 x (AD)4-08, F2 (2016)	AD_ch11_At.11	N/A	87.5	BNL1408	View

Sequence

>BNL1408 ID=BNL1408; Name=BNL1408; organism=Gossypium hirsutum; type=genetic_marker; length=199bp
AAGGGAGAGAAACGGAGAGCGGATTTATAGCGTGAAAGTGAAGAATTTAA
ATAGAATATAAAATTCTAGAATAAAAATATAATATAATAAAAATAAAGAA
AACAAAGCGGATAGTCCCAGAAATTGCCTGAGAGAGAGAGAGAGAGAGAG
AGAGAGAGAGAGAGTTGTTTGNNGTTTGGGTGGTGGGAGAGGTGAAATG

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BNL1408, BNL1408 (genetic_marker) Gossypium hirsutum