HAU0311, HAU0311 (genetic_marker) gossypium spp

Marker Overview
NameHAU0311
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TCT)5＋(TAA)5
PCR ConditionAnnealing temperature: 57.1
Primer 1HAU0311_F: GAATTAGAAGCGAGCAAAGC
Primer 2HAU0311_R: GTGCAGGAGTTGAATGATGA
Product Length226
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D11chromosomeD11:308234..308459 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A11chromosomeA11:336198..336423 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018225.1chromosomeCM018225.1:295784..296009 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018212.1chromosomeCM018212.1:367588..367813 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_11chromosomeD5_11:65375261..65375495 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_11chromosomeKI_11:262937..263168 +Gossypioides kirkii genome ISU_v3n/a
Chr11_CRI-A2_v1.0.a1chromosomeChr11_CRI-A2_v1.0.a1:124173792..124174017 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_11chromosomeD10_11:375837..376074 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016624.1chromosomeCM016624.1:437376..437610 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:42181269..42181494 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D11chromosomeD11:309772..309997 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A11chromosomeA11:370323..370548 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D11chromosomeGhir_D11:352725..352950 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A11chromosomeGhir_A11:340820..341045 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D11chromosomeD11:348698..348923 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A11chromosomeA11:301724..301949 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D11chromosomeD11:342017..342242 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A11chromosomeA11:209441..209666 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D11chromosomeD11:341929..342154 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A11chromosomeA11:346378..346603 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold19139supercontigscaffold19139:1666..1891 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold35509supercontigscaffold35509:23770..23995 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D11chromosomeGbar_D11:268488..268713 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D11chromosomeD11:310239..310464 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A11chromosomeA11:357392..357617 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017633.1chromosomeCM017633.1:301614..301839 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017620.1chromosomeCM017620.1:366446..366671 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017659.1chromosomeCM017659.1:335191..335416 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017646.1chromosomeCM017646.1:353075..353300 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017711.1chromosomeCM017711.1:328408..328633 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017698.1chromosomeCM017698.1:330375..330600 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D11chromosomeD11:308064..308289 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A11chromosomeA11:345296..345521 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr11chromosomeChr11:385015..385240 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr11chromosomeChr11:346829..347054 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr11chromosomeChr11:62862705..62862939 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_11chromosomeB_11:403703..403928 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr07chromosomeChr07:357296..357521 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr07chromosomechr07:253400..253637 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_07chromosomeChr_07:261013..261247 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr07chromosomeChr07:396903..397137 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr07chromosomeChr07:245380..245614 +Gossypium aridum (D4) genome ISU_v1n/a
Chr07chromosomeChr07:213722..213950 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr07chromosomeChr07:260738..260972 +Gossypium lobatum (D7) genome ISU_v1n/a
E11chromosomeE11:328935..329163 +Gossypium stocksii (E1) genome NSF_v1n/a
F11chromosomeF11:273472..273697 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr11chromosomeChr11:186558493..186558724 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0311 ID=HAU0311; Name=HAU0311; organism=Gossypium spp.; type=genetic_marker; length=226bp
GAATTAGAAGCGAGCAAAGCGGCAATTGATTGGCTGAGAATCGAAGACGA
AGGTGAGCCAGAGTATATGGGGGCAAGTGGCAGTTTCTTGGACGATCTTC
TTAGCTGGTTTCAACATCGCCATTTCACCATCTCTTCTTCCTCTTCTAAT
AATACTACTCAAATTAATAATAACAATAATGATATTATTATTGTCGATCA
ACATCATCATCATTCAACTCCTGCAC