UCcg10027_548, UCcg10027_548 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10027_548
AliasUCcg10027_548
dbSNP IDN/A
TypeSNP
SNP AllelesA/G
5' Flanking SequenceATGCTTTTGTATCTTCCTATCTTGTACTTT
3' Flanking SequenceAATTTGTCTCATATTTGCTTGTAACCGGAT
SpeciesGossypium spp.
Source TypeEST 5' end
Primer 1cg10027_F: CCCTCAAAGACGTTGGTGTT
Primer 2cg10027_R: CATCTGTTGGGTAACCAGAGC
Primer 3cg10027_F: CCCTCAAAGACGTTGGTGTT
Primer 4cg10027_R: CATCTGTTGGGTAACCAGAGC
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
CM018219.1chromosomeCM018219.1:15739619..15739679 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:17317416..17317476 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:14738037..14738097 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:17545713..17545773 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:45641504..45641564 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:25987455..25987515 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1899.1supercontigscaffold1899.1:284182..284242 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:15749327..15749387 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:16046278..16046338 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:16230129..16230189 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:17677139..17677199 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:15840619..15840679 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:17141592..17141652 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:16052182..16052242 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:17690607..17690667 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:15946350..15946410 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:17863432..17863492 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D05chromosomeGbar_D05:16112556..16112616 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:16928592..16928652 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:16090921..16090981 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:17609800..17609860 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:15987372..15987432 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:17348216..17348276 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017640.1chromosomeCM017640.1:17729347..17729407 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:16086096..16086156 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:17151006..17151066 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:16433110..16433170 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:17962427..17962487 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:18589134..18589194 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:17420371..17420431 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:14805659..14805719 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:68873012..68873072 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:15425087..15425147 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:13756444..13756504 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:13004779..13004839 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:15835392..15835452 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:11422164..11422224 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:13240260..13240320 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:18971774..18971834 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:15015386..15015446 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:175612012..175612072 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr09chromosomeUCD_cg10027_548:1..61 .
Chr09:14697234..14697294 +		n/a
Sequence
>UCD_cg10027_548 ID=UCD_cg10027_548; Name=UCD_cg10027_548; organism=Gossypium spp.; type=genetic_marker; length=65bp
ATGCTTTTGTATCTTCCTATCTTGTACTTT[A/G]AATTTGTCTCATATT
TGCTTGTAACCGGAT