HAU0915, HAU0915 (genetic_marker) gossypium spp

Marker Overview
NameHAU0915
AliasTA21327_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TCA)6
PCR ConditionAnnealing temperature: 56.9
Primer 1HAU0915_F: ACGAAGTCTCAAATGGAAGG
Primer 2HAU0915_R: TTACGAGCTTCACTCCATGA
Product Length233
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D13chromosomeD13:59713343..59713575 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A13chromosomeA13:99411296..99411528 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018227.1chromosomeCM018227.1:55397889..55398121 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018214.1chromosomeCM018214.1:103308462..103308694 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_13chromosomeD5_13:54474112..54474344 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_13chromosomeKI_13:39515997..39516229 +Gossypioides kirkii genome ISU_v3n/a
Chr13_CRI-A2_v1.0.a1chromosomeChr13_CRI-A2_v1.0.a1:118694313..118694545 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_13chromosomeD10_13:56332652..56332884 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:153746238..153746470 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr13chromosomeAt_chr13:24970258..24970490 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D13chromosomeD13:55651367..55651599 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A13chromosomeA13:75476548..75476780 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D13chromosomeGhir_D13:58576800..58577032 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A13chromosomeGhir_A13:103261656..103261887 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D13chromosomeD13:59503488..59503720 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A13chromosomeA13:105489312..105489544 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D13chromosomeD13:58722097..58722329 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A13chromosomeA13:103723136..103723368 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D13chromosomeD13:55448111..55448343 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A13chromosomeA13:102228220..102228452 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold6373supercontigscaffold6373:20209..20441 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10634supercontigscaffold10634:250..482 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D13chromosomeGbar_D13:55151752..55151984 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A13chromosomeGbar_A13:104186027..104186259 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D13chromosomeD13:56351557..56351789 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A13chromosomeA13:107686600..107686832 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017635.1chromosomeCM017635.1:56163466..56163698 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017622.1chromosomeCM017622.1:105351614..105351846 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017661.1chromosomeCM017661.1:59412831..59413063 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017661.1chromosomeCM017661.1:59356889..59357121 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017648.1chromosomeCM017648.1:110397078..110397310 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017713.1chromosomeCM017713.1:55994033..55994265 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017700.1chromosomeCM017700.1:105408262..105408494 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D13chromosomeD13:59845951..59846183 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A13chromosomeA13:106459582..106459814 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr13chromosomeChr13:112480098..112480330 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr13chromosomeChr13:117040673..117040905 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr13chromosomeChr13:54468106..54468338 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_13chromosomeB_13:6863359..6863591 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr13chromosomeChr13:55702476..55702708 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr13chromosomechr13:41128096..41128319 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_13chromosomeChr_13:39640915..39641147 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr13chromosomeChr13:58453509..58453741 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr13_6040105chromosomeChr13_6040105:7361..7593 -Gossypium aridum (D4) genome ISU_v1n/a
Chr13_3391334chromosomeChr13_3391334:1299..1531 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr13chromosomeChr13:37541057..37541289 +Gossypium lobatum (D7) genome ISU_v1n/a
E13chromosomeE13:108901603..108901835 +Gossypium stocksii (E1) genome NSF_v1n/a
F13chromosomeF13:90875848..90876080 +Gossypium longicalyx (F1) genome NSF_v1n/a
Sequence
>HAU0915 ID=HAU0915; Name=HAU0915; organism=Gossypium spp.; type=genetic_marker; length=233bp
ACGAAGTCTCAAATGGAAGGAGTTGTAGTAAAAGAAGAGGAAACTCAAAT
GACGTTTGCAACAGCTGTTGGGACTACTGCTGGGTTTTCTTCATCATCAT
CGTCATCAAATGTTACTCCTCAGCCGAAGGAAGGGCTTAACGAGGTTGGT
CCGCCGCCGTTCTTGACTAAAACTTTTGATATGGTGGAAGACCCTTCGAC
TGATTCGGTGGTTTCATGGAGTGAAGCTCGTAA