UCcg10301_1051, UCcg10301_1051 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_1051
AliasUCcg10301_1051
dbSNP IDN/A
TypeSNP
SNP AllelesG/C
5' Flanking SequenceTAAGGAGCAATGAATCTCTAGCACAATCAT
3' Flanking SequenceGAACAAAAAGGGGTAAAACGAGCATATCAT
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
CM018224.1chromosomeCM018224.1:61219693..61219752 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106254621..106254681 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532438..3532497 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252545..4252605 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016623.1chromosomeCM016623.1:139953279..139953339 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1048.1supercontigscaffold1048.1:112026..112086 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:60125887..60125946 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:97219914..97219974 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63891604..63891663 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111063888..111063948 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63249809..63249868 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534490..111534550 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:62391752..62391812 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:111172796..111172856 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60348821..60348880 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387367..61387426 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106532071..106532131 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381254..62381313 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917224..107917284 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:61334734..61334794 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029220..64029279 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:114904676..114904736 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62711041..62711100 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493378..109493438 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062282..64062341 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348550..114348610 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124077094..124077154 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007355..120007415 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620220..58620279 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:4718172..4718232 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:60768508..60768567 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:49690018..49690077 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:41044326..41044385 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:62220978..62221038 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:46000274..46000333 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:45999869..45999928 -Gossypium aridum (D4) genome ISU_v1n/a
E10chromosomeE10:5175362..5175422 +Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:91349460..91349520 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeUCD_cg10301_1051:2..61 .
Chr11:59148097..59148156 -		n/a
Sequence
>UCD_cg10301_1051 ID=UCD_cg10301_1051; Name=UCD_cg10301_1051; organism=Gossypium spp.; type=genetic_marker; length=65bp
TAAGGAGCAATGAATCTCTAGCACAATCAT[C/G]GAACAAAAAGGGGTA
AAACGAGCATATCAT