UCcg10301_638, UCcg10301_638 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_638
AliasUCcg10301_638
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceGATGACAAATCTAAAAATTCCCATAGAACC
3' Flanking SequenceCTTTACTCAATAGTTTATGTAGTGACCCTC
SpeciesGossypium spp.
Source TypeEST 3' end
Primer 1cg10301_F: TGCAGGAAGCAATTCACAAG
Primer 2cg10301_R: TATACCAAACCCGAACCCAA
Primer 3cg10301_F: TGCAGGAAGCAATTCACAAG
Primer 4cg10301_R: TATACCAAACCCGAACCCAA
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
CM018224.1chromosomeCM018224.1:61220106..61220166 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106255033..106255093 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532024..3532084 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_10chromosomeKI_10:2523524..2523584 +Gossypioides kirkii genome ISU_v3n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252133..4252193 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:3545432..3545492 +Gossypium turneri (D10) genome NSF_v1_a2n/a
scaffold1048.1supercontigscaffold1048.1:112440..112500 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:60126300..60126360 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:97220326..97220386 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63892017..63892077 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111064300..111064360 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63250222..63250282 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534902..111534962 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:62392166..62392226 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:111173208..111173268 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60349234..60349294 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387780..61387840 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106532483..106532543 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381667..62381727 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917636..107917696 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:61335148..61335208 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:107209751..107209811 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029633..64029693 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:114905087..114905147 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62711445..62711505 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493790..109493850 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062695..64062755 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348962..114349022 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124077506..124077566 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007767..120007827 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620633..58620693 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
chr11chromosomechr11:49690409..49690469 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:41044738..41044798 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:62221389..62221449 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:46001005..46001065 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:33763610..33763670 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:44727298..44727358 -Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:5174950..5175010 +Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:91349873..91349933 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeUCD_cg10301_638:1..61 .
Chr11:59148510..59148570 -		n/a
Sequence
>UCD_cg10301_638 ID=UCD_cg10301_638; Name=UCD_cg10301_638; organism=Gossypium spp.; type=genetic_marker; length=65bp
GATGACAAATCTAAAAATTCCCATAGAACC[C/T]CTTTACTCAATAGTT
TATGTAGTGACCCTC