HAU0616, HAU0616 (genetic_marker) gossypium spp

Marker Overview
NameHAU0616
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TGA)5
PCR ConditionAnnealing temperature: 57.4
Primer 1HAU0616_F: ACCGTTGGATCCCTAGTTCT
Primer 2HAU0616_R: GCAGCGACTAGGTCCTTAAA
Product Length137
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:15218861..15218997 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:16297583..16297719 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:14329260..14329396 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:15950022..15950158 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:13471375..13471511 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:12135119..12135251 +Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:16136512..16136648 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:46864503..46864639 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:23785134..23785270 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr7chromosomeAt_chr7:5148616..5148752 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold2081.1supercontigscaffold2081.1:224949..225085 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:14301085..14301221 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:14662667..14662803 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold243340supercontigscaffold243340:23..159 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:14842737..14842873 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:16271295..16271429 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:14450401..14450537 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:15737091..15737227 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:14663736..14663872 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:16285369..16285505 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:14557526..14557662 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:16449757..16449893 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold3324supercontigscaffold3324:128843..128979 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold19230supercontigscaffold19230:21619..21755 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:14750679..14750815 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:15545797..15545933 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:14718449..14718585 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:16173783..16173919 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:14606300..14606436 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:15963561..15963697 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:15054689..15054825 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:16285429..16285565 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:14735457..14735593 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:15773896..15774032 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:15035707..15035843 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:16538867..16539003 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:17061528..17061664 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:16011066..16011202 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:13529234..13529370 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:70344541..70344677 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:14149739..14149875 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:12621220..12621356 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:12057325..12057461 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:14539920..14540056 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:12182722..12182858 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:10494959..10495095 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:12144496..12144632 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:17466535..17466671 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:13803788..13803924 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:177776376..177776512 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0616 ID=HAU0616; Name=HAU0616; organism=Gossypium spp.; type=genetic_marker; length=137bp
ACCGTTGGATCCCTAGTTCTACCTGACACACCAAACTCCATGATCGAACG
TGGTCAAACCGAGGAAGCCAGAGCCAAACTCAAGAAAATCCGAGGGGTTG
ATGATGTTGATGAGGAGTTTAAGGACCTAGTCGCTGC