UCcg10301_919, UCcg10301_919 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_919
AliasUCcg10301_919
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceGCCCCAATATAAAATTTCTAGTTCGAAAAT
3' Flanking SequenceGCCTTATTCAATGTTTTTAGTTACTTGCAT
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
CM018224.1chromosomeCM018224.1:61219825..61219885 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106254753..106254813 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532305..3532365 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252413..4252473 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:3545712..3545772 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:139953404..139953464 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1048.1supercontigscaffold1048.1:112159..112219 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:60126019..60126079 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:97220046..97220106 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63891736..63891796 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111064020..111064080 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63249941..63250001 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534622..111534682 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:62391885..62391945 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:111172928..111172988 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60348953..60349013 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387499..61387559 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106532203..106532263 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381386..62381446 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917356..107917416 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:61334867..61334927 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:107209471..107209531 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029352..64029412 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:114904808..114904868 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62711173..62711233 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493510..109493570 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062414..64062474 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348682..114348742 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124077226..124077286 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007487..120007547 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620352..58620412 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:4718040..4718100 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:60768640..60768700 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:49689693..49689753 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:41044458..41044517 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:46000565..46000624 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:33763329..33763389 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:44726424..44726484 -Gossypium lobatum (D7) genome ISU_v1n/a
Chr11chromosomeUCD_cg10301_919:1..61 .
Chr11:59148229..59148289 -		n/a
Sequence
>UCD_cg10301_919 ID=UCD_cg10301_919; Name=UCD_cg10301_919; organism=Gossypium spp.; type=genetic_marker; length=65bp
GCCCCAATATAAAATTTCTAGTTCGAAAAT[C/T]GCCTTATTCAATGTT
TTTAGTTACTTGCAT