UCcg11011_77, UCcg11011_77 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg11011_77
AliasUCcg11011_77
dbSNP IDN/A
TypeSNP
SNP AllelesT/A
5' Flanking SequenceTGGGACATTGTTAATAAAATGAAATATGAT
3' Flanking SequenceACATGTGTAAATTGAATATTGTAATAGGCC
SpeciesGossypium spp.
Source TypeEST 5' end
Primer 1cg11011_F: AGCAACTGTGTGAATTGGGA
Primer 2cg11011_R: GTTGTGGAGCATGGAGGC
Primer 3cg11011_F: AGCAACTGTGTGAATTGGGA
Primer 4cg11011_R: GTTGTGGAGCATGGAGGC
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
CM018206.1chromosomeCM018206.1:33944386..33944446 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:34968524..34968584 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
Dt_chr9chromosomeDt_chr9:38905695..38905755 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A05chromosomeA05:31807244..31807304 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A05chromosomeGhir_A05:33906828..33906888 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A05chromosomeA05:33674721..33674781 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:34838797..34838857 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:33919254..33919314 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A05chromosomeGbar_A05:32790687..32790747 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A05chromosomeA05:34407874..34407934 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017614.1chromosomeCM017614.1:33978586..33978646 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:34203664..34203724 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
A05chromosomeA05:35282656..35282716 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:36295738..36295798 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:36013754..36013814 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1TM-1 x 3-79, RIL (2012)AD_ch05_At.05N/A107.99UCcg11011_77View
2TM-1 x 3-79, RIL (2014)AD_ch05_At.05N/A92.1UCcg11011_77View
3TM-1 x 3-79, RIL (2012.v3)AD_ch05_At.05N/A92.12UCcg11011_77View
Sequence
>UCD_cg11011_77 ID=UCD_cg11011_77; Name=UCD_cg11011_77; organism=Gossypium spp.; type=genetic_marker; length=65bp
TGGGACATTGTTAATAAAATGAAATATGAT[A/T]ACATGTGTAAATTGA
ATATTGTAATAGGCC