HAU0238, HAU0238 (genetic_marker) gossypium spp

Marker Overview
NameHAU0238
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TTG)5
PCR ConditionAnnealing temperature: 56.9
Primer 1HAU0238_F: GACATTGGGAGGAATGTGAT
Primer 2HAU0238_R: CAAAGCTTTCACCACTTCAA
Product Length247
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D12chromosomeD12:39068407..39068759 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A12chromosomeA12:71596159..71596508 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018226.1chromosomeCM018226.1:35937309..35937661 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018213.1chromosomeCM018213.1:68956149..68956498 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_12chromosomeD5_12:23314854..23315206 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_12chromosomeKI_12:43241434..43241792 -Gossypioides kirkii genome ISU_v3n/a
Chr12_CRI-A2_v1.0.a1chromosomeChr12_CRI-A2_v1.0.a1:32508968..32509317 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_12chromosomeD10_12:31253498..31253853 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016625.1chromosomeCM016625.1:97568647..97569002 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr8chromosomeDt_chr8:23204835..23205187 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr8chromosomeAt_chr8:59990550..59990899 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D12chromosomeD12:35178081..35178433 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A12chromosomeA12:58264036..58264385 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D12chromosomeGhir_D12:38340845..38341197 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A12chromosomeGhir_A12:76491217..76491566 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D12chromosomeD12:37611876..37612228 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A12chromosomeA12:77759432..77759781 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D12chromosomeD12:38297959..38298311 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A12chromosomeA12:74755242..74755591 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D12chromosomeD12:36076127..36076479 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A12chromosomeA12:71666712..71667061 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold798supercontigscaffold798:235395..235744 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13581supercontigscaffold13581:105109..105461 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13581supercontigscaffold13581:101515..101867 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D12chromosomeGbar_D12:35267249..35267601 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A12chromosomeGbar_A12:71293463..71293812 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D12chromosomeD12:36504862..36505214 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A12chromosomeA12:71073208..71073557 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017634.1chromosomeCM017634.1:36315059..36315411 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017621.1chromosomeCM017621.1:72458322..72458671 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017660.1chromosomeCM017660.1:38746405..38746757 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017647.1chromosomeCM017647.1:75261945..75262294 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017712.1chromosomeCM017712.1:37053900..37054252 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017699.1chromosomeCM017699.1:71287301..71287650 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D12chromosomeD12:38383243..38383595 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A12chromosomeA12:77725012..77725361 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr12chromosomeChr12:16099491..16099840 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr12chromosomeChr12:84523547..84523896 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr12chromosomeChr12:34451197..34451549 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_12chromosomeB_12:58603787..58604139 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr08chromosomeChr08:34631080..34631435 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr08chromosomechr08:26602941..26603287 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_08chromosomeChr_08:24427137..24427492 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr08chromosomeChr08:35813459..35813811 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr08chromosomeChr08:24132188..24132540 +Gossypium aridum (D4) genome ISU_v1n/a
Chr08chromosomeChr08:18996406..18996758 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr08chromosomeChr08:23234864..23235216 +Gossypium lobatum (D7) genome ISU_v1n/a
E12chromosomeE12:61606580..61606938 -Gossypium stocksii (E1) genome NSF_v1n/a
F12chromosomeF12:63196684..63197034 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr12chromosomeChr12:40378135..40378487 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0238 ID=HAU0238; Name=HAU0238; organism=Gossypium spp.; type=genetic_marker; length=242bp
GACATTGGGAGGAATGTGATCCATGGGAGTGATTCCGTCGAGAGTGCAAG
GAAGGAAATCGCCCTTTGGTTCCCTGAATGCCCTGTTAACTGGCAGAGCA
GCCTTCACCCTTGGATCTACGAGTAGAAATCATTTGGTAGAAGCTGTTGA
CCGTCATGGCTCTGTCCCGGTTGTTTGTTGTTGTTGTTGCCAGCCCTTTG
ATATTTATGTTACTATTATAGTTTGAAGTGGTGAAAGCTTTG