HAU0604, HAU0604 (genetic_marker) gossypium spp

Marker Overview
NameHAU0604
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(AAAT)5
PCR ConditionAnnealing temperature: 56.0
Primer 1HAU0604_F: GAGTTGGAAAATGGTCATCC
Primer 2HAU0604_R: GGGGCACATGAGTTCTATTA
Product Length234
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D02chromosomeD02:36149941..36150174 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018216.1chromosomeCM018216.1:33828945..33829178 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_03chromosomeD5_03:27425789..27426022 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Dt_chr5chromosomeDt_chr5:44391200..44391390 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold3831_D02supercontigscaffold3831_D02:17271..17504 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D02chromosomeGhir_D02:35618456..35618688 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D02chromosomeD02:36428993..36429226 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D02chromosomeD02:37430160..37430393 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D02chromosomeD02:34516230..34516463 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold8606supercontigscaffold8606:409633..409866 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D02chromosomeGbar_D02:34327472..34327705 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D02chromosomeD02:35590618..35590851 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017624.1chromosomeCM017624.1:36582664..36582897 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017650.1chromosomeCM017650.1:37065542..37065775 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017702.1chromosomeCM017702.1:35168891..35169124 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D02chromosomeD02:37926869..37927102 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr03chromosomeChr03:36200947..36201180 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_03chromosomeB_03:40938750..40938994 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr05chromosomeChr05:38153937..38154182 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_05chromosomeChr_05:24774576..24774838 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr05chromosomeChr05:39516136..39516370 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr05chromosomeChr05:25294143..25294388 -Gossypium aridum (D4) genome ISU_v1n/a
Chr05chromosomeChr05:21259669..21259902 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr05chromosomeChr05:26632605..26632838 -Gossypium lobatum (D7) genome ISU_v1n/a
Chr03chromosomeChr03:157699566..157699806 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch03_At.03N/A88.03HAU0604View
2CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch03_At.03N/A106.1HAU0604View
3TM-1 x Hai-7124, BC1 (2012)AD_ch03_At.03N/A62.3HAU0604-250View
Sequence
>HAU0604 ID=HAU0604; Name=HAU0604; organism=Gossypium spp.; type=genetic_marker; length=234bp
GAGTTGGAAAATGGTCATCCTCGTGAAGGGGACGTAGGCAATGGCAAATT
TTGTGCTGACAAACAAGGGAATGGCATCCAAAAGCCAATGTAGCCCCCCT
TTTGGCTTTTGACGTTACACAACACTGCCAACATTTTTTTTTACCTTTTT
ATTTGTTTATTTTATTTGGAGTCTTTGATTGCTGCAGCACCCAAAATAAA
TAAATAATAAATAATAATAGAACTCATGTGCCCC