HAU0249, HAU0249 (genetic_marker) gossypium spp

Marker Overview
NameHAU0249
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(AGA)11
PCR ConditionAnnealing temperature: 56.7
Primer 1HAU0249_F: GACGAGAAAGAAGGTGAAGG
Primer 2HAU0249_R: CTGGAACTGAGGTGTCCTCT
Product Length124
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:16516524..16516647 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:17576891..17577014 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:15535860..15535983 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:17138569..17138692 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:14605684..14605807 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:13090657..13090809 +Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:17330253..17330376 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:45765205..45765325 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:25588196..25588319 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold1899.1supercontigscaffold1899.1:96205..96328 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr9chromosomeDt_chr9:54184085..54184208 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:15592411..15592534 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:15871720..15871843 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:16069277..16069400 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:17503696..17503819 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:15681665..15681788 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:16956535..16956658 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:15891265..15891388 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:17517209..17517332 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:15785389..15785512 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:17689826..17689949 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt05chromosomeDt05:16301345..16301468 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At05chromosomeAt05:12565799..12565922 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At05chromosomeAt05:12567120..12567243 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold5733supercontigscaffold5733:118766..118889 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold5733supercontigscaffold5733:120087..120210 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold22907supercontigscaffold22907:48643..48766 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:15957009..15957132 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:16749773..16749896 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:15934985..15935108 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:17435114..17435237 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:15826312..15826435 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:17169002..17169125 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:16273822..16273945 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:17551789..17551912 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:15930554..15930677 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:16967607..16967730 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:16272155..16272278 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:17788827..17788950 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:18417490..18417613 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:17204839..17204962 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:14672949..14673072 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:69024149..69024272 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:15303253..15303376 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:13636845..13636965 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:12894289..12894409 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:15712763..15712886 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09_6014316chromosomeChr09_6014316:2543..2666 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:11320470..11320593 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:13137301..13137424 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:18801272..18801395 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:14882101..14882224 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:175916982..175917105 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0249 ID=HAU0249; Name=HAU0249; organism=Gossypium spp.; type=genetic_marker; length=124bp
GACGAGAAAGAAGGTGAAGGAGAAGAGAAGAAGAAGAAGAAAAAGAAGGA
GAAGAAGGGACTGGAAGAAAAGATTGAAGAGAAATTAGAAGGGGAAAAGA
AAGAAGAGGACACCTCAGTTCCAG