UCcg10301_1109, UCcg10301_1109 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_1109
AliasUCcg10301_1109
dbSNP IDN/A
TypeSNP
SNP AllelesA/T
5' Flanking SequenceCATTGACTCTATTTGCAAATATTTGAAGCA
3' Flanking SequenceAGAGAAAACCCGAAACAAAAACACAAGCCA
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
CM018224.1chromosomeCM018224.1:61219635..61219695 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106254563..106254623 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532495..3532555 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252603..4252663 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:3545902..3545962 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:139953221..139953281 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1048.1supercontigscaffold1048.1:111968..112028 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A10chromosomeA10:97219856..97219916 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63891546..63891606 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111063829..111063890 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63249751..63249811 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534432..111534492 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:62391694..62391754 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:111172738..111172798 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60348763..60348823 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387309..61387369 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106532013..106532073 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381196..62381256 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917166..107917226 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:61334676..61334736 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:107209281..107209341 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029162..64029222 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:114904618..114904678 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62710983..62711043 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493320..109493380 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062224..64062284 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348492..114348552 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124077036..124077096 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007297..120007357 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620162..58620222 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:4718230..4718290 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:60768450..60768510 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:49689334..49689394 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:41044268..41044328 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:62220920..62220980 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:45999812..45999871 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:33763139..33763199 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:44726235..44726294 -Gossypium lobatum (D7) genome ISU_v1n/a
F10chromosomeF10:91349403..91349462 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeUCD_cg10301_1109:1..61 .
Chr11:59148039..59148099 -		n/a
Sequence
>UCD_cg10301_1109 ID=UCD_cg10301_1109; Name=UCD_cg10301_1109; organism=Gossypium spp.; type=genetic_marker; length=65bp
CATTGACTCTATTTGCAAATATTTGAAGCA[A/T]AGAGAAAACCCGAAA
CAAAAACACAAGCCA