TMB1271, TMB1271 (genetic_marker) Gossypium hirsutum

Marker Overview
NameTMB1271
AliasTMH A82-N11
Genbank IDBV679928
TypeSSR
SpeciesGossypium hirsutum
GermplasmTM-1
Source Sequencereverse_complement_BV679928.1
Source Typegenomic
Repeat Motif(CA)15 + (CA)21; (CA)15+(CA)21
PCR ConditionAnnealing temperature: 55
Primer 1TMB1271_F: TCGATTAAAAATGAGCCTTGG
Primer 2TMB1271_R: GGATACAATCTAATTTCATCCCAAT
Product Length241
PolymorphismP_ TMB1271
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:genbankBV679928
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D07chromosomeD07:20677939..20678177 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018221.1chromosomeCM018221.1:19819608..19819798 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:18877891..18878081 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_07chromosomeD10_07:34993080..34993270 +Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr1chromosomeDt_chr1:53911172..53911412 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:19738836..19739103 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:20295053..20295287 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:19487996..19488234 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:20268898..20269134 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:19817335..19817573 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold5285supercontigscaffold5285:173922..174112 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D07chromosomeGbar_D07:20249851..20250041 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:19870433..19870625 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:20210804..20211010 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:20481617..20481837 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:20142106..20142300 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:20483664..20483902 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:34029046..34029236 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr01chromosomeChr01:19959156..19959418 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr01chromosomeChr01:20070194..20070460 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:16904933..16905115 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:15387043..15387235 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:19693522..19693728 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:12654678..12654880 -Gossypium gossypioides (D6) genome ISU_v1n/a
Germplasm
Stock NameType
TM-1accession
Relationships

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

Feature NameUnique NameSpeciesType
reverse_complement_BV679928.1reverse_complement_BV679928.1Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI-36 x Hai-7124, F2 (2007)AD_ch16_Dt.07N/A35TMHA82View
2Deltapine-61 x Texas-701, F2 (2007)AD_ch16_Dt.07N/A28.5TMB1271-237View
3AD-genome wide Reference Map (2009)AD_ch16_Dt.07N/A113TMB1271View
4TM-1 x 3-79, RIL (2012)AD_ch16_Dt.07N/A66.7TMB1271View
5TM-1 x 3-79, RIL (2014)AD_ch16_Dt.07N/A55.8TMB1271View
6CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch16_Dt.07N/A77.6TMB1271View
7TM-1 x 3-79, RIL (2012.v3)AD_ch16_Dt.07N/A55.84TMB1271View
Sequence
>TMB1271 ID=TMB1271; Name=TMB1271; organism=Gossypium hirsutum; type=genetic_marker; length=241bp
TCGATTAAAAATGAGCCTTGGGGGCCAAATTGATTGAATGTGTCAATAGA
ATTGTGTGTGTGTGTGAACAAAATTGAAAAATGAAAGATTAGATGCCATT
AATTGAAAAATGAAAATTTAGTATCATAGTGTTATATGTATGTGTGTGTG
TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTG
TGTGTGTGTGTGTGAAATTGGGATGAAATTAGATTGTATCC