TMB0180, TMB0180 (genetic_marker) Gossypium hirsutum

Marker Overview


Name	TMB0180
Alias	TMB09
Genbank ID	BV679307
Type	SSR
Species	Gossypium hirsutum
Germplasm	TM-1
Source Sequence	BV679307.1
Source Type	genomic
Repeat Motif	(CA(9
PCR Condition	Annealing temperature: 55
Primer 1	TMB0180_F: CAACCATCACACCCAACAAA
Primer 2	TMB0180_R: AAAATGGAATGTTCCAGTCACC
Product Length	200
Contact	Yu, John Z. (Zhi-Hong)
Comment	Primer data obtained in 2005-10

Contact

Name

Details

Yu, John Z. (Zhi-Hong)

Description:	Cotton molecular genetics and genomics including integrative genome mapping and QTL identification from the Gossypium germplasm.
First name:	John
Last name:	Yu
Title:	Research Geneticist
Institution:	USDA-ARS
Address:	2765 F&B Road, College Station, Texas 77845
Country:	United States
Email:	zyu@qutun.tamu.edu
Phone:	1-979-260-9237
Fax:	1-979-260-9333
Keywords:	Cotton Molecular Genetics
Last update:	6-Sep-2007

Cross References

External references for this genetic_marker


Database	Accession
DB:genbank	BV679307

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
CM018208.1	chromosome	CM018208.1:67583369..67583566 +
tig00006301_CRI-A2_v1.0.a1	chromosome	tig00006301_CRI-A2_v1.0.a1:101800..102007 +
At_chr3	chromosome	At_chr3:52433208..52433407 +
A07	chromosome	A07:51903558..51903757 +
Ghir_D07	chromosome	Ghir_D07:36266183..36266368 +
Ghir_A07	chromosome	Ghir_A07:69797176..69797375 -
A07	chromosome	A07:69432041..69432240 -
A07	chromosome	A07:70347253..70347452 -
A07	chromosome	A07:68069110..68069309 -
Dt07	chromosome	Dt07:39449176..39449354 +
At07	chromosome	At07:57407153..57407350 +
scaffold6010	supercontig	scaffold6010:92952..93149 +
scaffold10319	supercontig	scaffold10319:421829..422007 +
Gbar_D07	chromosome	Gbar_D07:35917545..35917723 +
Gbar_A07	chromosome	Gbar_A07:67237544..67237741 +
A07	chromosome	A07:68762526..68762723 +
CM017616.1	chromosome	CM017616.1:70153798..70153995 +
CM017642.1	chromosome	CM017642.1:72303327..72303528 -
CM017694.1	chromosome	CM017694.1:68444385..68444582 +
A07	chromosome	A07:71335432..71335631 -
Chr07	chromosome	Chr07:64829898..64830111 +
Chr07	chromosome	Chr07:66784072..66784279 +
Chr_01	chromosome	Chr_01:25001125..25001395 +

Germplasm


Stock Name	Type
TM-1	accession

Relationships

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


Feature Name	Unique Name	Species	Type
BV679307.1	BV679307.1	Gossypium hirsutum	sequence_feature

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	CCRI-36 x Hai-7124, F2 (2007)	AD_ch15_Dt.01	N/A	76.4	TMB09	View
2	Emian-22 x 3-79, BC1 (2011)	AD_ch16_Dt.07	N/A	39.21	TMB0180	View
3	AD-genome wide Reference Map (2009)	AD_ch15_Dt.01	N/A	103	TMB0180	View
4	AD-genome wide Reference Map (2009)	AD_ch16_Dt.07	N/A	136	TMB0180	View
5	Handan-208 x Pima-90, F2:3 (2007)	AD_ch16_Dt.07	N/A	109.6	TMHB09	View
6	Xinluzao-1 x Hai-7124, F2 (2008)	AD_ch16_Dt.07	N/A	132	TMHB09	View
7	TM-1 x 3-79, RIL (2012)	AD_ch07_At.07	N/A	87.53	TMB0180b	View
8	TM-1 x 3-79, RIL (2014)	AD_ch07_At.07	N/A	50.1	TMB0180b	View
9	TM-1 x 3-79, RIL (2012)	AD_ch16_Dt.07	N/A	84.37	TMB0180a	View
10	TM-1 x 3-79, RIL (2014)	AD_ch16_Dt.07	N/A	40.1	TMB0180a	View
11	TM-1 x Hai-7124, BC1 (2007)	AD_ch16_Dt.07	N/A	81	TMB09-170	View
12	TM-1 x Hai-7124, BC1 (2008)	AD_ch16_Dt.07	N/A	80.8	TMB09-170	View
13	H16 x T586, F2 (2009)	AD_ch16_Dt.07	N/A	80.9	TMB09-170	View
14	TM-1 x Hai-7124, BC1 (2012)	AD_ch16_Dt.07	N/A	50.5	TMB09-170	View
15	TM-1 x 3-79, RIL (2012.v3)	AD_ch07_At.07	N/A	50.06	TMB0180b	View
16	TM-1 x 3-79, RIL (2012.v3)	AD_ch16_Dt.07	N/A	40.08	TMB0180a	View

Sequence

>TMB0180 ID=TMB0180; Name=TMB0180; organism=Gossypium hirsutum; type=genetic_marker; length=200bp
CAACCATCACACCCAACAAACATGCTTTAAACACTTAATCTTGAACACGA
AATCCTAAATTATGCATTGCCTAGCACAATTGAGAAATTTAAAAACAAGA
GTAGAATCGTCCCTTTAAACATCACTAGCCAAAAAAAAAAACACACACAC
ACACACACAAATCATAAAATTAATAATAGGTGACTGGAACATTCCATTTT

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TMB0180, TMB0180 (genetic_marker) Gossypium hirsutum