UCcg10481_205, UCcg10481_205 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10481_205
AliasUCcg10481_205
dbSNP IDN/A
TypeSNP
SNP AllelesC/A
5' Flanking SequenceAATGGCATCAACCTTCGTAGGAAACTCGAC
3' Flanking SequenceTCCATCCAGGAAATGTTCAGGCGAGTTAGC
SpeciesGossypium spp.
Source TypeEST 5' end
Primer 1cg10481_F: CTCACAGCATCAGCCATGTT
Primer 2cg10481_R: CGGTAGCGTCCTGGTATTGT
Primer 3cg10481_F: CTCACAGCATCAGCCATGTT
Primer 4cg10481_R: CGGTAGCGTCCTGGTATTGT
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
CM018225.1chromosomeCM018225.1:66169761..66169821 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_11chromosomeD5_11:2855359..2855419 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr11_CRI-A2_v1.0.a1chromosomeChr11_CRI-A2_v1.0.a1:4140366..4140425 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_11chromosomeD10_11:65758713..65758773 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016624.1chromosomeCM016624.1:140301736..140301795 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold56.1supercontigscaffold56.1:1052343..1052403 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A11chromosomeA11:90020442..90020501 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold4489_D11supercontigscaffold4489_D11:47550..47610 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Scaffold404supercontigScaffold404:210544..210604 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A11chromosomeGhir_A11:119932718..119932777 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D11chromosomeD11:68148660..68148720 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A11chromosomeA11:118240391..118240450 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D11chromosomeD11:69213848..69213908 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A11chromosomeA11:116145724..116145783 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D11chromosomeD11:65766561..65766621 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A11chromosomeA11:112800659..112800718 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D11chromosomeGbar_D11:65959101..65959161 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D11chromosomeD11:68872096..68872156 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017633.1chromosomeCM017633.1:67885158..67885218 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017620.1chromosomeCM017620.1:117096424..117096483 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017659.1chromosomeCM017659.1:70387308..70387368 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017646.1chromosomeCM017646.1:123168615..123168674 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017711.1chromosomeCM017711.1:65814236..65814296 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D11chromosomeD11:69463244..69463304 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A11chromosomeA11:120874977..120875036 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr11chromosomeChr11:128429855..128429914 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr11chromosomeChr11:127168689..127168748 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr11chromosomeChr11:2697664..2697724 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_11chromosomeB_11:98444449..98444508 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr07chromosomeChr07:66710721..66710781 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr07chromosomechr07:47672681..47672741 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_07chromosomeChr_07:46572035..46572095 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr07chromosomeChr07:68292620..68292680 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr07chromosomeChr07:42825082..42825142 +Gossypium aridum (D4) genome ISU_v1n/a
Chr07chromosomeChr07:35596515..35596575 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr07chromosomeChr07:44899933..44899992 +Gossypium lobatum (D7) genome ISU_v1n/a
E11chromosomeE11:112019345..112019405 +Gossypium stocksii (E1) genome NSF_v1n/a
F11chromosomeF11:96575556..96575615 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeChr11:1432677..1432736 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr07chromosomeUCD_cg10481_205:1..61 .
Chr07:58208754..58208814 +		n/a
Sequence
>UCD_cg10481_205 ID=UCD_cg10481_205; Name=UCD_cg10481_205; organism=Gossypium spp.; type=genetic_marker; length=65bp
AATGGCATCAACCTTCGTAGGAAACTCGAC[A/C]TCCATCCAGGAAATG
TTCAGGCGAGTTAGC