UCcg10301_917, UCcg10301_917 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10301_917
AliasUCcg10301_917
dbSNP IDN/A
TypeSNP
SNP AllelesA/T
5' Flanking SequenceAGGCCCCAATATAAAATTTCTAGTTCGAAA
3' Flanking SequenceTCGCCTTATTCAATGTTTTTAGTTACTTGC
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
CM018224.1chromosomeCM018224.1:61219827..61219887 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:106254755..106254815 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:3532303..3532363 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:4252411..4252471 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:3545710..3545770 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:139953406..139953466 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1048.1supercontigscaffold1048.1:112161..112221 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:60126021..60126081 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:97220048..97220108 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:63891738..63891798 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:111064022..111064082 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:63249943..63250003 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:111534624..111534684 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:62391887..62391947 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:111172930..111172990 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:60348955..60349015 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:61387501..61387561 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:106532205..106532265 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:62381388..62381448 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:107917358..107917418 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:61334869..61334929 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:107209473..107209533 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:64029354..64029414 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:114904810..114904870 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:62711175..62711235 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:109493512..109493572 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:64062416..64062476 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:114348684..114348744 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:124077228..124077288 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:120007489..120007549 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:58620354..58620414 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:4718038..4718098 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:60768642..60768702 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:49689695..49689755 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:41044460..41044519 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:46000567..46000627 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:33763331..33763391 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:44726426..44726486 -Gossypium lobatum (D7) genome ISU_v1n/a
Chr11chromosomeUCD_cg10301_917:1..61 .
Chr11:59148231..59148291 -		n/a
Sequence
>UCD_cg10301_917 ID=UCD_cg10301_917; Name=UCD_cg10301_917; organism=Gossypium spp.; type=genetic_marker; length=65bp
AGGCCCCAATATAAAATTTCTAGTTCGAAA[A/T]TCGCCTTATTCAATG
TTTTTAGTTACTTGC