UCcg10301_1178, UCcg10301_1178 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_1178
AliasUCcg10301_1178
dbSNP IDN/A
TypeSNP
SNP AllelesC/T
5' Flanking SequenceGGAAGTTCCCACAAACAAGCAATTATTCCC
3' Flanking SequenceACCAATACAGAGTTAAAGAGAAGAGACTAT
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
CM018224.1chromosomeCM018224.1:61219566..61219626 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106254495..106254554 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532564..3532624 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252672..4252732 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:3545971..3546031 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:139953152..139953212 -Gossypium australe (G2) genome CRI_v1.1n/a
D10chromosomeD10:60125760..60125820 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:97219787..97219847 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63891477..63891537 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111063760..111063820 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63249682..63249742 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534363..111534423 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111172669..111172729 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60348694..60348754 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387240..61387300 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106531945..106532004 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381127..62381187 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917098..107917157 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017619.1chromosomeCM017619.1:107209212..107209272 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029093..64029153 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:114904549..114904609 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62710914..62710974 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493252..109493311 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062155..64062215 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348423..114348483 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124076967..124077027 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007228..120007288 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620093..58620153 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:4718299..4718358 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:60768381..60768441 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_11chromosomeChr_11:41044199..41044259 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:62220851..62220911 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:45999584..45999644 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:33763070..33763130 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:44726166..44726226 -Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:5175489..5175549 +Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:91349334..91349394 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeUCD_cg10301_1178:1..61 .
Chr11:59147970..59148030 -		n/a
Sequence
>UCD_cg10301_1178 ID=UCD_cg10301_1178; Name=UCD_cg10301_1178; organism=Gossypium spp.; type=genetic_marker; length=65bp
GGAAGTTCCCACAAACAAGCAATTATTCCC[C/T]ACCAATACAGAGTTA
AAGAGAAGAGACTAT