HAU3180, HAU3180 (genetic_marker) gossypium spp

Marker Overview
NameHAU3180
Genbank IDGR712715
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TGA)6+(GAT)5
PCR ConditionAnnealing temperature: 53.1
Primer 1HAU3180_F: CCACGGTGCTTAGGGTGTCA
Primer 2HAU3180_R: ACATGAACACCATCTTTCTTCA
Product Length349
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankGR713826
DB:genbankGR712715
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A09chromosomeA09:12932193..12932563 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018223.1chromosomeCM018223.1:9680447..9680795 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018210.1chromosomeCM018210.1:12111873..12112237 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_09chromosomeD5_09:9967212..9967564 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_09chromosomeD10_09:34090493..34090848 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016622.1chromosomeCM016622.1:79238031..79238413 -Gossypium australe (G2) genome CRI_v1.1n/a
At_chr6chromosomeAt_chr6:16448306..16448676 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A09chromosomeA09:12303513..12303883 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A09chromosomeGhir_A09:12945425..12945795 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A09chromosomeA09:12691734..12692104 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A09chromosomeA09:13059279..13059649 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A09chromosomeA09:13313437..13313807 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold4245supercontigscaffold4245:174173..174537 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11602supercontigscaffold11602:83174..83522 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D09chromosomeGbar_D09:10881174..10881522 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A09chromosomeGbar_A09:12436386..12436750 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D09chromosomeD09:12052503..12052851 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A09chromosomeA09:12771360..12771724 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:9762510..9762848 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017618.1chromosomeCM017618.1:12825856..12826220 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:9541745..9542093 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017644.1chromosomeCM017644.1:12182831..12183207 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017709.1chromosomeCM017709.1:10079777..10080125 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017696.1chromosomeCM017696.1:12908918..12909282 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
A09chromosomeA09:13302337..13302707 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:12984848..12985221 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr09chromosomeChr09:10227406..10227758 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_09chromosomeB_09:11958557..11958912 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr06chromosomeChr06:9510034..9510386 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr06chromosomeChr06:9736628..9736977 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr06chromosomeChr06:5793609..5793964 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeChr06:7459320..7459672 +Gossypium lobatum (D7) genome ISU_v1n/a
E09chromosomeE09:68032122..68032495 -Gossypium stocksii (E1) genome NSF_v1n/a
F09chromosomeF09:9629615..9629982 +Gossypium longicalyx (F1) genome NSF_v1n/a
Sequence
>HAU3180 ID=HAU3180; Name=HAU3180; organism=Gossypium spp.; type=genetic_marker; length=349bp
CCACGGTGCTTAGGGTGTCACATGCATCCTACTTGTAGTCCAAAGATAAG
AGTAAGGGCAGTCATAAGTTGAGGTCAAGGGAGATGGTCACTAGCTATAG
ATTGATCACTTGGAGAGTTGTTGATGGGAGGCATGGTTTGAAAGATTCTG
AGTTTTCAGCTTCAAGGATTTTGGACCATTTGTCTAATCACTATGATGAT
GGTGATGATGATGATGATGATGGGTTCAAGGTGAATTCTCAAGAACCCTT
GAGAGAAATGGAACACTATAAAGGAGAGACTGAAGAAAATATTATTGTTG
ACCATAATAAGGATGATGATGATGATGTGAAGAAAGATGGTGTTCATGT