HAU1048, HAU1048 (genetic_marker) gossypium spp

Marker Overview
NameHAU1048
AliasTA24699_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(CAA)5
PCR ConditionAnnealing temperature: 57.1
Primer 1HAU1048_F: TACTGGATTGCTGCTTCTCA
Primer 2HAU1048_R: ATTTTTGGATGGCTTGTGTT
Product Length269
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D10chromosomeD10:970246..970606 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A10chromosomeA10:945977..946342 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018224.1chromosomeCM018224.1:916743..917102 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:951106..951471 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:61526390..61526750 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:128535582..128535950 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_10chromosomeD10_10:63025857..63026216 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:1341964..1342326 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold26.1supercontigscaffold26.1:2456325..2456690 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold1231.1supercontigscaffold1231.1:409535..409895 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:923224..923584 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:920629..920994 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:1207601..1207961 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:518413..518778 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:964794..965154 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:858369..858734 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:995360..995720 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:172773..173138 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:995744..996104 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A10chromosomeA10:955460..955825 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold4443supercontigscaffold4443:266770..267129 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11959supercontigscaffold11959:291278..291643 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11959supercontigscaffold11959:289536..289901 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D10chromosomeGbar_D10:903900..904259 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:1026061..1026426 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:936216..936575 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:982258..982650 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:940627..940986 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:992141..992506 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:944853..945213 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:1000036..1000404 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:927516..927875 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:982284..982673 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:941601..941961 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:939976..940341 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:971029..971396 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:975177..975545 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr10chromosomeChr10:865674..866034 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:96308111..96308471 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:878826..879176 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:897257..897616 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:742770..743129 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:896648..897007 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:739360..739722 -Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:726288..726646 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:857124..857484 -Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:112798106..112798464 +Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:900828..901194 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr10chromosomeChr10:168663691..168664058 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch20_Dt.10N/A160.1HAU1048View
Sequence
>HAU1048 ID=HAU1048; Name=HAU1048; organism=Gossypium spp.; type=genetic_marker; length=269bp
TACTGGATTGCTGCTTCTCACTGCCGGAAGTGATCAATCAACTGTTGATG
ACGGCGTTTCATCGGATATGGAAGATAAACGAGCTAAAAATGAACTGGCT
CAATTACAAGATGAATTGAAACGTATGAATGCTGAGAACCAGAAGCTTAA
AGACATGCTCAGCCATGTCAGTAACAATTACAGTGCTCTCCATATGCACC
TCGTCACCTTAATGCAACAACAACAACAACCACCACAAAGGAACCGAGAA
ACACAAGCCATCCAAAAAT