HAU1052, HAU1052 (genetic_marker) gossypium spp

Marker Overview
NameHAU1052
AliasTA24814_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TCT)6
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU1052_F: GATTCAGGGGAATGAGACAG
Primer 2HAU1052_R: GGTTTCTCAGATCGGCTTTA
Product Length266
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:18800454..18800719 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:20583349..20583613 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:17843022..17843287 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:19949104..19949368 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:16726813..16727078 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:15023066..15023327 -Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:20205254..20205516 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:43583373..43583638 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:30206903..30207167 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:53521076..53521341 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr9chromosomeAt_chr9:42944576..42944840 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:18129766..18130031 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:18700136..18700400 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:18310020..18310285 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:20365032..20365296 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:17906244..17906509 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:19771822..19772086 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:18145495..18145760 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:20376913..20377177 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:18023248..18023513 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:20540554..20540818 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt05chromosomeDt05:18692073..18692338 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt05chromosomeDt05:18688794..18689059 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold7787supercontigscaffold7787:176791..177056 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold7787supercontigscaffold7787:173512..173777 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:18193201..18193466 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:19529336..19529600 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:18191328..18191593 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:20226952..20227216 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:18038897..18039162 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:19992531..19992795 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:18493917..18494182 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:20425884..20426148 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:18183895..18184160 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:19744471..19744735 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:18618900..18619165 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:20685128..20685392 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:21522246..21522510 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:20127824..20128086 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:16802323..16802588 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:66326010..66326274 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:17399274..17399539 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:15557856..15558121 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:14575191..14575456 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:17906953..17907218 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:14750115..14750380 -Gossypium aridum (D4) genome ISU_v1n/a
Chr09_3420606chromosomeChr09_3420606:6468..6733 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:14931536..14931801 -Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:21568486..21568750 -Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:17272301..17272565 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:170532974..170533229 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU1052 ID=HAU1052; Name=HAU1052; organism=Gossypium spp.; type=genetic_marker; length=266bp
GATTCAGGGGAATGAGACAGTTTAATCAAACAAAGCTTATTGCTTTTGGA
AAAGACATAGTGAGATTCACCAAGGGTAGAAACCACCGAGAGAGCGCTAA
CAAGTATCCCAAGAAATGCTGAACGAAAGACTTCGTCTTCTTCTTCTTCT
TCAAAGGCTCTTCTCCATTTTGTTGTTGGTATTATGCGGTGAAGCTGCAA
AGCTATTGACATCACCTGAGGCTACTGCTCTTCTGGGTTTTCAGTCTAAA
GCCGATCTGAGAAACC