UCcg10301_1021, UCcg10301_1021 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_1021
AliasUCcg10301_1021
dbSNP IDN/A
TypeSNP
SNP AllelesT/C
5' Flanking SequenceCCATGCAATATAATATGAAAATAAAACACA
3' Flanking SequenceAAGGAGCAATGAATCTCTAGCACAATCATG
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
CM018224.1chromosomeCM018224.1:61219724..61219783 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106254651..106254711 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532407..3532466 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252515..4252575 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
scaffold1048.1supercontigscaffold1048.1:112057..112117 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:60125918..60125977 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:97219944..97220004 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63891635..63891694 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111063918..111063978 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63249840..63249899 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534520..111534580 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:62391783..62391843 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:111172826..111172886 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60348852..60348911 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387398..61387457 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106532101..106532161 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381285..62381344 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917254..107917314 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:61334765..61334825 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:107209369..107209429 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029251..64029310 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:114904706..114904766 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62711072..62711131 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493408..109493468 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062313..64062372 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348580..114348640 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124077124..124077184 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007385..120007445 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620251..58620310 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:4718142..4718202 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:60768538..60768598 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:49690048..49690108 -Gossypium armourianum (D2-1) genome ISU_v1n/a
chr11chromosomechr11:49689591..49689651 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:41044356..41044415 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:62221008..62221068 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:46000304..46000364 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:45999899..45999960 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:44726322..44726382 -Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:5175332..5175392 +Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:91349490..91349550 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeUCD_cg10301_1021:1..60 .
Chr11:59148128..59148187 -		n/a
Sequence
>UCD_cg10301_1021 ID=UCD_cg10301_1021; Name=UCD_cg10301_1021; organism=Gossypium spp.; type=genetic_marker; length=65bp
CCATGCAATATAATATGAAAATAAAACACA[C/T]AAGGAGCAATGAATC
TCTAGCACAATCATG