TMB0409, TMB0409 (genetic_marker) Gossypium hirsutum

Marker Overview
NameTMB0409
AliasTMP02
Genbank IDBV679885
TypeSSR
SpeciesGossypium hirsutum
GermplasmTM-1
Source Sequencereverse_complement_BV679885.1
Source Typegenomic
Repeat Motif(CA)10+(GA)5
PCR ConditionAnnealing temperature: 55
Primer 1TMB0409_F: CAGAGGACGAAGGTAGCAG
Primer 2TMB0409_R: TGGTGGGTTTCACTTTCACA
Product Length221
ContactYu, John Z. (Zhi-Hong)
CommentPrimer data obtained in 2005-10
Contact
NameDetails
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
DatabaseAccession
DB:genbankBV679885
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A01chromosomeA01:11025094..11025314 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:11633520..11633852 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
At_chr2chromosomeAt_chr2:10526720..10526940 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A01chromosomeA01:9869677..9869897 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A01chromosomeGhir_A01:10320884..10321104 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A01chromosomeA01:9818934..9819154 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A01chromosomeA01:10443277..10443497 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A01chromosomeA01:10264147..10264367 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
CM017610.1chromosomeCM017610.1:11256728..11256960 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017636.1chromosomeCM017636.1:10524922..10525156 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
A01chromosomeA01:10455127..10455347 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:10527353..10527607 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr01chromosomeChr01:11474575..11474910 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
F05chromosomeF05:60008574..60008902 +Gossypium longicalyx (F1) genome NSF_v1n/a
F10chromosomeF10:33363389..33363611 -Gossypium longicalyx (F1) genome NSF_v1n/a
Germplasm
Stock NameType
TM-1accession
Relationships

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

Feature NameUnique NameSpeciesType
reverse_complement_BV679885.1reverse_complement_BV679885.1Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1TM-1 x 3-79, RIL (2012)AD_ch01_At.01N/A30.74TMB0409View
2(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch11_At.11N/A27TMB0409View
3DH962 x Jinmian-6, F2 (2009)AD_chUN/A44TMB0409View
4DH962 X Ji Mian 5, F2 (2015)AD_ch01_At.01N/A66.44TMB0409View
5DH962 X Ji Mian 5, F2 (2015)AD_ch15_Dt.01N/A66.44TMB0409View
6TM-1 x 3-79, RIL (2014)AD_ch01_At.01N/A113.6TMB0409View
7DH962 x Ji Mian 5, RIL (2015)AD_ch01_At.01N/A57.9TMB0409View
8DH962 x Ji Mian 5, RIL (2015)AD_ch15_Dt.01N/A57.9TMB0409View
9CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch01_At.01N/A108.7TMB0409View
10TM-1 x (TX-0256 + TX-1046), CSIL (2016)AD_ch01_At.01N/A84TMP02View
110-153 x sGK9708, RIL (2016)AD_ch01_At.01N/A30.1TMP02aView
120-153 x sGK9708, RIL (2017)AD_ch01_At.01N/A80.78TMP02aView
130-153 x sGK9708, RIL (2016)AD_ch01_At.01N/A33.4TMP02bView
14TM-1 x 3-79, RIL (2012.v3)AD_ch01_At.01N/A113.64TMB0409View
Sequence
>TMB0409 ID=TMB0409; Name=TMB0409; organism=Gossypium hirsutum; type=genetic_marker; length=221bp
CAGAGGACGAAGGTAGCAGATTAAAAGAGGATAAGGGGGTGCCGCTAGCT
TGAGTTATAAAAGAGGGTACTCTTACAAAGCCCACCATTATTACTCCCAA
TCTCTCTCTCTTTCACACACACACACACACACACTTCTTCCCTATTTCCA
TCTCTGCACTTTTGAGGAGCTAAGAAGATTCGATTCTAATTTCTAAAACG
CTGTGAAAGTGAAACCCACCA