UCgsp10046_413, UCgsp10046_413 (genetic_marker) gossypium spp

Marker Overview
NameUCD_gsp10046_413
AliasUCgsp10046_413
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceGCAGCTACATGTGAAATGAAATAAATGCTT
3' Flanking SequenceTAACCATGTATTAACCCATACATCTGCAGG
SpeciesGossypium spp.
Source TypeCotton genome-specific amplicons
Primer 1GSP10046_F: GATCAGCACATTGCGAATGGC
Primer 2GSP10046_R: ATTCAGCCTGACCTTCTATA
Primer 3GSP10046_F: GATCAGCACATTGCGAATGGC
Primer 4GSP10046_R: ATTCAGCCTGACCTTCTATA
Publication[view all]
ContactVan Deynze, Allen
CommentPrimer data obtained in 2010
Contact
NameDetails
Van Deynze, Allen
Description:Deployment of moloecular markers in breding and breeding systems. ; Gene Flow and transgenics
First name:Allen
Last name:Van Deynze
Title:Biotechnology Specialist
Institution:University of California
Address:1 Shields Ave, Davis, CA 95616
Country:United States
Email:avandeynze@ucdavis.edu
Phone:530-754-6444
Last update:20-Feb-2007
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
CM018206.1chromosomeCM018206.1:91027801..91027861 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_04chromosomeD5_04:41664470..41664530 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_06chromosomeKI_06:49269797..49269857 +Gossypioides kirkii genome ISU_v3n/a
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:85850144..85850204 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_04chromosomeD10_04:9419684..9419744 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016617.1chromosomeCM016617.1:15434122..15434182 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr11chromosomeAt_chr11:99254020..99254080 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A05chromosomeA05:79855219..79855279 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A05chromosomeGhir_A05:97195032..97195092 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A05chromosomeA05:98664495..98664555 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:97126322..97126382 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:95198925..95198985 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A05chromosomeGbar_A05:91011263..91011323 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A05chromosomeA05:96072004..96072064 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017614.1chromosomeCM017614.1:92913467..92913527 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017640.1chromosomeCM017640.1:101462685..101462745 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017692.1chromosomeCM017692.1:93860110..93860170 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A05chromosomeA05:98719402..98719462 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:12669470..12669530 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr04chromosomeChr04:12599175..12599235 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr04chromosomeChr04:41413134..41413194 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
chr12chromosomechr12:8626914..8626974 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_12chromosomeChr_12:6650360..6650420 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr12chromosomeChr12:8751063..8751123 +Gossypium aridum (D4) genome ISU_v1n/a
Chr12chromosomeChr12:6206033..6206093 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr12chromosomeChr12:8168715..8168775 +Gossypium lobatum (D7) genome ISU_v1n/a
E04chromosomeE04:15867771..15867831 +Gossypium stocksii (E1) genome NSF_v1n/a
F04chromosomeF04:10838072..10838132 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr04chromosomeChr04:19379654..19379713 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr12chromosomeUCD_gsp10046_413:1..61 .
Chr12:9168291..9168351 +		n/a
Sequence
>UCD_gsp10046_413 ID=UCD_gsp10046_413; Name=UCD_gsp10046_413; organism=Gossypium spp.; type=genetic_marker; length=65bp
GCAGCTACATGTGAAATGAAATAAATGCTT[C/T]TAACCATGTATTAAC
CCATACATCTGCAGG