UCcg10539_492, UCcg10539_492 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10539_492
AliasUCcg10539_492
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceGCTAAGGCTACAAGGTGGGGCTCGACATAC
3' Flanking SequenceGGAATAGAGATAAAAGAATTCATTGTCGAA
SpeciesGossypium spp.
Source TypeEST 5' end
Primer 1cg10539_F: AAGGCGTTCAAATGGATGAA
Primer 2cg10539_R: GGCAAAGAGGTGATTGTGGT
Primer 3cg10539_F: AAGGCGTTCAAATGGATGAA
Primer 4cg10539_R: GGCAAAGAGGTGATTGTGGT
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
CM018221.1chromosomeCM018221.1:53433762..53433822 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018208.1chromosomeCM018208.1:91216356..91216416 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:48921515..48921575 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:15378..15438 -Gossypioides kirkii genome ISU_v3n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:94670020..94670080 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:2777489..2777549 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016620.1chromosomeCM016620.1:4365010..4365070 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr9chromosomeAt_chr9:48161346..48161406 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr1chromosomeDt_chr1:85171776..85171836 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold157906supercontigscaffold157906:242..302 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D07chromosomeD07:52597688..52597748 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:75685854..75685914 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:56600731..56600791 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:95108838..95108898 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:55855698..55855758 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:94091040..94091100 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:56228178..56228238 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:94117036..94117096 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:52558222..52558282 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:90626937..90626997 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D07chromosomeGbar_D07:53801344..53801404 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A07chromosomeGbar_A07:90332775..90332835 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:54474783..54474843 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A07chromosomeA07:92513051..92513111 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:54407686..54407746 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:94174749..94174809 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:55404128..55404188 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:97135319..97135379 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:54488915..54488975 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017694.1chromosomeCM017694.1:92534435..92534495 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:56820974..56821034 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:96282251..96282311 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:98020639..98020699 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:99319271..99319331 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:2552045..2552105 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:82763752..82763812 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:53310966..53311026 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:43275524..43275584 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:38266091..38266151 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:53053795..53053855 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:40288633..40288693 -Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:31342485..31342545 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:38903218..38903278 -Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:4180169..4180229 +Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:79943867..79943927 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr01chromosomeUCD_cg10539_492:1..61 .
Chr01:52998652..52998712 -		n/a
Sequence
>UCD_cg10539_492 ID=UCD_cg10539_492; Name=UCD_cg10539_492; organism=Gossypium spp.; type=genetic_marker; length=65bp
GCTAAGGCTACAAGGTGGGGCTCGACATAC[C/T]GGAATAGAGATAAAA
GAATTCATTGTCGAA