USDA_CFB5837, USDA_CFB5837 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUSDA_CFB5837
AliasCFB5837
dbSNP IDN/A
TypeSNP
SNP AllelesT/G
5' Flanking SequenceCTGCTTCAATGGAACGAGCTCTACGGTGAGGGTGGG
3' Flanking SequenceTCACGAAGAAAGAAGGCTCTCAGCTACT
SpeciesGossypium hirsutum
Publication[view all]
ContactFang, David D.
CommentSNP originated from Institute for Genome Diversity, Cornell University, Ithaca, NY.
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
CM018221.1chromosomeCM018221.1:5996897..5996960 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018208.1chromosomeCM018208.1:6710494..6710557 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:5958926..5958989 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:32842585..32842648 -Gossypioides kirkii genome ISU_v3n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:6747601..6747664 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:47851310..47851373 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016620.1chromosomeCM016620.1:107221460..107221523 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold3746.1supercontigscaffold3746.1:93339..93402 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold3306.1supercontigscaffold3306.1:47235..47298 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:5905544..5905607 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:5907894..5907957 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:6245430..6245493 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:6773981..6774044 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:5994974..5995037 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:6353396..6353459 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:6207304..6207367 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:6734247..6734310 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:6048888..6048951 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:6800862..6800925 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D07chromosomeGbar_D07:6268681..6268744 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A07chromosomeGbar_A07:6680296..6680359 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:6163105..6163168 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A07chromosomeA07:6536712..6536775 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:6437066..6437129 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:6476094..6476157 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:6372382..6372445 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:6696918..6696981 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:6293778..6293841 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017694.1chromosomeCM017694.1:6588914..6588977 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:6338732..6338795 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:6806154..6806217 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:6824671..6824734 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:6751025..6751088 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:47619876..47619939 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:7078353..7078416 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:6108984..6109047 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:5661413..5661476 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:6151819..6151882 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:6124702..6124765 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:4968670..4968733 +Gossypium aridum (D4) genome ISU_v1n/a
Chr01_3412692chromosomeChr01_3412692:11486..11549 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:5312485..5312548 +Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:86234701..86234764 -Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:6076340..6076403 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:10038414..10038477 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr01chromosomeChr01:5883640..5883641 .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_CFB5837 ID=USDA_CFB5837; Name=USDA_CFB5837; organism=Gossypium hirsutum; type=genetic_marker; length=69bp
CTGCTTCAATGGAACGAGCTCTACGGTGAGGGTGGG[G/T]TCACGAAGA
AAGAAGGCTCTCAGCTACT