HAU1034, HAU1034 (genetic_marker) gossypium spp

Marker Overview
NameHAU1034
AliasTA24495_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TTCA)4
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU1034_F: CTTCTTTTGCGCTTAACAAAC
Primer 2HAU1034_R: CCACATGGTGTACTTGTGCT
Product Length212
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:15869026..15869252 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:17045727..17045951 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:14962836..14963066 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:16633809..16634025 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:14109516..14109744 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:16873247..16873473 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:46254430..46254662 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:24636097..24636332 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:69556271..69556536 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:14965979..14966203 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:15331149..15331373 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:15492243..15492469 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:17017271..17017494 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:15092427..15092654 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:16473287..16473511 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:15313828..15314055 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:17030884..17031108 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:15207750..15207977 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:17202829..17203053 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold8464supercontigscaffold8464:34761..34977 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold8464supercontigscaffold8464:39965..40181 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold497supercontigscaffold497:49303..49505 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:15384264..15384492 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:16245675..16245891 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:15350881..15351176 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:16933681..16933897 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:15225710..15225937 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:16670787..16671009 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:15714035..15714261 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:17039434..17039661 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:15361756..15361982 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:16447047..16447263 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:15685908..15686134 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:17297669..17297893 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:17900934..17901156 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:16747924..16748151 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:14168880..14169106 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr09chromosomeChr09:14783904..14784127 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr09chromosomeChr09:15171169..15171394 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:12678593..12678883 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:10942020..10942319 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:12697629..12697886 +Gossypium lobatum (D7) genome ISU_v1n/a
E05chromosomeE05:18247384..18247609 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:14439160..14439390 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:176676539..176676765 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch05_At.05N/A112.64HAU1034View
2CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch05_At.05N/A89.6HAU1034View
3TM-1 x Hai-7124, BC1 (2012)AD_ch05_At.05N/A133HAU1034-200View
Sequence
>HAU1034 ID=HAU1034; Name=HAU1034; organism=Gossypium spp.; type=genetic_marker; length=212bp
CTTCTTTTGCGCTTAACAAACTTCATTCATTCATTCACTCACCTACTCTT
TCTTTTCATTTTTTTTCACTCAAAGAGGCAAGCAAAAAATTTTCCCCCCC
CCCCAGTTTCGCTGTTCAGTGACAATGGCGATTGTGAATATGGTGATGGC
TGTGGTTATCATGGCAGCGACCCTCGGAGGGAAATTGGGTGCAGCACAAG
TACACCATGTGG