USDA_CFB0115, USDA_CFB0115 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUSDA_CFB0115
AliasCFB0115
dbSNP IDN/A
TypeSNP
SNP AllelesA/G
5' Flanking SequenceTGCAGTTTTGAGCTGAGCCTTGCTT
3' Flanking SequenceTATTGCTGGTTGTTTTTTTATGACCATGATGTTATTTTTGTTATTTGAAGTGCTGATTTA CC
SpeciesGossypium hirsutum
Publication[view all]
ContactFang, David D.
CommentSNP generated in Data2Bio, LLC, Ames, IA
Contact
NameDetails
Fang, David D.
Description:Molecular markers, fiber development
First name:David
Last name:Fang
Title:Supervisory Research Geneticist
Institution:USDA-ARS-SRRC-CFBRU
Address:1100 Robert E. Lee Blvd, New Orleans, LA 70124
Country:United States
Email:david.fang@usda.gov
Phone:504 286 4527
Fax:001662686-5218
Keywords:Structural Genomics
Last update:2-Jul-2009
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
CM018223.1chromosomeCM018223.1:48113316..48113403 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_09chromosomeD5_09:41451845..41451933 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_09chromosomeD10_09:2438186..2438273 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016622.1chromosomeCM016622.1:3478741..3478828 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold288.1supercontigscaffold288.1:145027..145114 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D09chromosomeD09:48369139..48369226 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D09chromosomeGhir_D09:50364163..50364250 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D09chromosomeD09:49670886..49670973 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D09chromosomeD09:50112253..50112340 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D09chromosomeD09:48206348..48206435 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D09chromosomeGbar_D09:48992263..48992350 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D09chromosomeD09:51367301..51367388 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:49109598..49109685 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:50627359..50627446 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017709.1chromosomeCM017709.1:49792874..49792961 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D09chromosomeD09:51953313..51953400 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:47676565..47676652 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr06chromosomeChr06:48448142..48448229 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_06chromosomeChr_06:33868658..33868745 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr06chromosomeChr06:37496172..37496259 -Gossypium aridum (D4) genome ISU_v1n/a
Chr06chromosomeChr06:28434276..28434363 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeChr06:34859438..34859525 -Gossypium lobatum (D7) genome ISU_v1n/a
E09chromosomeE09:3184257..3184344 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:63217593..63217680 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr06chromosomeChr06:48803233..48803234 .Gossypium raimondii (D5) genome JGI_v2_a2.1Islam MS, Thyssen GN, Jenkins JN, and Fang DD. Detection, Validation, and Application of Genotyping-by-Sequencing Based Single Nucleotide Polymorphisms in Upland Cotton. The Plant Genome. 2015 March; 8(1):1-10.
Sequence
>USDA_CFB0115 ID=USDA_CFB0115; Name=USDA_CFB0115; organism=Gossypium hirsutum; type=genetic_marker; length=92bp
TGCAGTTTTGAGCTGAGCCTTGCTT[A/G]TATTGCTGGTTGTTTTTTTA
TGACCATGATGTTATTTTTGTTATTTGAAGTGCTGATTTACC