HAU0682, HAU0682 (genetic_marker) gossypium spp

Marker Overview
NameHAU0682
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(AAGAA)4
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU0682_F: TGCTGGTTGCTCTATGAAAA
Primer 2HAU0682_R: CCACCTCCCATGCTATATTC
Product Length175
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
scaffold_224supercontigscaffold_224:18389..18563 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D09chromosomeD09:1634..1808 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A09chromosomeA09:83037..83226 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018223.1chromosomeCM018223.1:25645..25819 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018210.1chromosomeCM018210.1:11695653..11695827 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018210.1chromosomeCM018210.1:43689..43853 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_09chromosomeD5_09:65727..65900 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_09chromosomeD10_09:40126481..40126655 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016622.1chromosomeCM016622.1:102613989..102614161 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr6chromosomeAt_chr6:4656661..4656835 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr6chromosomeAt_chr6:4240277..4240466 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A09chromosomeA09:13601..13790 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Scaffold551supercontigScaffold551:33664..33838 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D09chromosomeGhir_D09:29066..29240 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A09chromosomeGhir_A09:26918..27107 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
scaffold180_subseq_1_85117_obj_D09supercontigscaffold180_subseq_1_85117_obj_D09:44515..44689 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D09chromosomeD09:38388..38562 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A09chromosomeA09:72605..72794 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A09chromosomeA09:59626..59800 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A09chromosomeA09:224769..224958 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold36203supercontigscaffold36203:8090..8264 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold19986supercontigscaffold19986:36507..36671 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold17943supercontigscaffold17943:28377..28551 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12171supercontigscaffold12171:31520..31694 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Scaffold621supercontigScaffold621:54641..54815 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Scaffold615supercontigScaffold615:47200..47374 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A09chromosomeGbar_A09:62563..62727 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
scaffold100_obj_D07supercontigscaffold100_obj_D07:45958..46132 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
D09chromosomeD09:36331..36505 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A09chromosomeA09:25671..25845 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A09chromosomeA09:252351..252515 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:44453..44627 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017618.1chromosomeCM017618.1:73421..73600 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:64217..64391 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017644.1chromosomeCM017644.1:59862..60041 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017709.1chromosomeCM017709.1:62688..62862 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017696.1chromosomeCM017696.1:232186..232350 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D09chromosomeD09:39797..39971 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A09chromosomeA09:34634..34808 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A09chromosomeA09:154466..154655 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:28976..29155 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr09chromosomeChr09:51185..51359 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_09chromosomeB_09:91663..91837 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr06chromosomeChr06:83855..84031 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr06chromosomechr06:7941..8115 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_06chromosomeChr_06:9048..9222 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr06chromosomeChr06:215976..216151 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr06chromosomeChr06:11507..11681 -Gossypium aridum (D4) genome ISU_v1n/a
Chr06chromosomeChr06:8089..8263 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeChr06:10969..11143 -Gossypium lobatum (D7) genome ISU_v1n/a
E09chromosomeE09:82798663..82798842 +Gossypium stocksii (E1) genome NSF_v1n/a
F09chromosomeF09:29800..29979 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr09chromosomeChr09:1220590..1220763 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0682 ID=HAU0682; Name=HAU0682; organism=Gossypium spp.; type=genetic_marker; length=175bp
TGCTGGTTGCTCTATGAAAATTTTTATTGGAAAGGAAGCCCATAATCTCT
CGTGCTCCAATGCATTTTGGGCCATTGTATAAATCACATTAGATGACTGG
GGAGAAGAAAAGAAAAGGAAAGAACAGAAACCAACAGCCATTTATGAATA
CGTAGGAATATAGCATGGGAGGTGG