TMB0809, TMB0809 (genetic_marker) Gossypium hirsutum

Marker Overview
NameTMB0809
AliasTMH B13-B19
Genbank IDBV679424
TypeSSR
SpeciesGossypium hirsutum
GermplasmTM-1
Source SequenceBV679424.1
Source Typegenomic
Repeat Motif(GA)18
PCR ConditionAnnealing temperature: 55
Primer 1TMB0809_F: AAAAATAAAAGAAACTAAAAAACAG
Primer 2TMB0809_R: AACCTCGATAATACCATTACG
Product Length198
PolymorphismP_ TMB0809
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:genbankBV679424
Alignments
The following features are aligned
Feature Name Type LocationAnalysis
A04chromosomeA04:28085241..28085438 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1
CM018205.1chromosomeCM018205.1:17957388..17957553 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1
CM018218.1chromosomeCM018218.1:28180307..28180499 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:67680634..67680821 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1
D10_04chromosomeD10_04:27387687..27387877 -Gossypium turneri (D10) genome NSF_v1_a2
At_chr12chromosomeAt_chr12:31671798..31671995 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1
Ghir_A04chromosomeGhir_A04:19647932..19648130 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1
A04chromosomeA04:18994982..18995179 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1
A04chromosomeA04:18203757..18203954 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1
A04chromosomeA04:18021967..18022166 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1
scaffold5164supercontigscaffold5164:132842..133007 -Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold5164supercontigscaffold5164:127008..127173 -Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold10480supercontigscaffold10480:46090..46282 -Gossypium barbadense (AD2) '3-79' genome HAU_v1
Gbar_A04chromosomeGbar_A04:17881064..17881229 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1
Gbar_D04chromosomeGbar_D04:26409572..26409764 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1
D04chromosomeD04:32792436..32792626 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1
A04chromosomeA04:17613684..17613849 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1
CM017613.1chromosomeCM017613.1:19145683..19145892 +Gossypium tomentosum (AD3) genome HGS_v1.1
CM017626.1chromosomeCM017626.1:29060314..29060504 -Gossypium tomentosum (AD3) genome HGS_v1.1
CM017639.1chromosomeCM017639.1:20432771..20432968 +Gossypium mustelinum (AD4) genome JGI_v1.1
CM017652.1chromosomeCM017652.1:30244429..30244621 -Gossypium mustelinum (AD4) genome JGI_v1.1
CM017691.1chromosomeCM017691.1:17736058..17736243 +Gossypium darwinii (AD5) genome HGS_v1.1
CM017704.1chromosomeCM017704.1:28745055..28745247 -Gossypium darwinii (AD5) genome HGS_v1.1
A04chromosomeA04:20086611..20086808 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1
Chr04chromosomeChr04:40983539..40983719 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1
Chr04chromosomeChr04:35425959..35426146 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1
Chr04chromosomeChr04:24917782..24917968 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1
Chr12chromosomeChr12:24699152..24699348 +Gossypium thurberi (D1-5) genome CRI_v1
Chr12chromosomeChr12:28040395..28040585 -Gossypium davidsonii (D3d-8) genome CRI_v1
Chr09chromosomeChr09:33508780..33508962 +Gossypium gossypioides (D6) genome ISU_v1
E04chromosomeE04:52369343..52369524 -Gossypium stocksii (E1) genome NSF_v1
Germplasm
Stock NameType
TM-1accession
Relationships

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

Feature NameUnique NameSpeciesType
BV679424.1BV679424.1Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI-36 x Hai-7124, F2 (2007)AD_ch04_At.04N/A77.1TMHB13View
2AD-genome wide Reference Map (2009)AD_ch04_At.04N/A72tmb0809View
3TM-1 x 3-79, RIL (2012)AD_ch04_At.04N/A46.42tmb0809View
4TM-1 x 3-79, RIL (2014)AD_ch04_At.04N/A47.1tmb0809View
5TM-1 x 3-79, RIL (2012.v3)AD_ch04_At.04N/A47.06TMB0809View
Sequence
>TMB0809 ID=TMB0809; Name=TMB0809; organism=Gossypium hirsutum; type=genetic_marker; length=198bp
AAAAATAAAAGAAACTAAAAAACAGAGAGAGAGAGAGAGAGAGAGAGAGA
GAGAGAGAGAAATTAAAGAAGAGAGTGAAATTCGACAAAAGCTGAGGACG
GGAAGGGAAGAAGCGGACACTGCAAAGCCACTCAGTAAAGAAGAGTGGTG
GTGGTGGCAATTTGAGTTTTAGTTGAACGTAATGGTATTATCGAGGTT