UCcg10301_988, UCcg10301_988 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_988
AliasUCcg10301_988
dbSNP IDN/A
TypeSNP
SNP AllelesT/G
5' Flanking SequenceAGTCACAAAATAAGAACATCATAAATTCAT
3' Flanking SequenceATCCATGCAATATAATATGAAAATAAAACA
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
CM018224.1chromosomeCM018224.1:61219756..61219816 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106254684..106254744 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532374..3532434 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252482..4252542 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:3545781..3545841 +Gossypium turneri (D10) genome NSF_v1_a2n/a
scaffold1048.1supercontigscaffold1048.1:112090..112150 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:60125950..60126010 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:97219977..97220037 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63891667..63891727 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111063951..111064011 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63249872..63249932 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534553..111534613 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:62391816..62391876 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:111172859..111172919 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60348884..60348944 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387430..61387490 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106532134..106532194 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381317..62381377 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917287..107917347 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:61334798..61334858 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:107209402..107209462 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029283..64029343 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62711104..62711164 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493441..109493501 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062345..64062405 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348613..114348673 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124077157..124077217 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007418..120007478 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620283..58620343 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:4718109..4718169 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:60768571..60768631 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:49689624..49689684 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:41044389..41044449 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:62221041..62221101 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:46000496..46000556 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:33763261..33763320 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:44726355..44726415 -Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:5175299..5175359 +Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:91349523..91349583 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeUCD_cg10301_988:1..61 .
Chr11:59148160..59148220 -		n/a
Sequence
>UCD_cg10301_988 ID=UCD_cg10301_988; Name=UCD_cg10301_988; organism=Gossypium spp.; type=genetic_marker; length=65bp
AGTCACAAAATAAGAACATCATAAATTCAT[G/T]ATCCATGCAATATAA
TATGAAAATAAAACA