HAU0961, HAU0961 (genetic_marker) gossypium spp

Marker Overview
NameHAU0961
AliasTA22700_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(GAA)8
PCR ConditionAnnealing temperature: 57.1
Primer 1HAU0961_F: GGTTGCTGAGACATCAAACA
Primer 2HAU0961_R: GACCACTTCTAAAGCCCAAA
Product Length182
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D07chromosomeD07:5484529..5484710 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A07chromosomeA07:5542309..5542490 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018221.1chromosomeCM018221.1:5175209..5175390 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018208.1chromosomeCM018208.1:5816689..5816870 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:5115679..5115866 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:33352837..33353012 +Gossypioides kirkii genome ISU_v3n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:5831583..5831773 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:48714590..48714771 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016620.1chromosomeCM016620.1:108581385..108581566 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr1chromosomeDt_chr1:40751666..40751847 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold2005.1supercontigscaffold2005.1:149683..149864 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:4953484..4953665 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:5043951..5044132 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:5419762..5419943 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:5899456..5899637 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:5218691..5218872 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:5532452..5532633 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:5373501..5373682 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:5858253..5858434 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:5206540..5206721 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:5912145..5912326 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt07chromosomeDt07:5652402..5652583 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold23728supercontigscaffold23728:5553..5734 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4016supercontigscaffold4016:24208..24389 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D07chromosomeGbar_D07:5432582..5432763 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A07chromosomeGbar_A07:5781518..5781699 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:5343935..5344116 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A07chromosomeA07:5650249..5650430 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:5644566..5644747 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:5574779..5574960 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:5534729..5534919 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:5816999..5817177 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:5417477..5417655 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017694.1chromosomeCM017694.1:5717107..5717279 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:5483434..5483615 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:5909811..5909992 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:5865248..5865429 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:5834825..5835015 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:48420477..48420664 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:6186792..6186973 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:5250061..5250245 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:4957396..4957580 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:5322853..5323034 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:5328479..5328660 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:4137508..4137692 -Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:3814983..3815173 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:4625830..4626014 -Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:87249040..87249215 +Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:5296186..5296364 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:8369073..8369253 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0961 ID=HAU0961; Name=HAU0961; organism=Gossypium spp.; type=genetic_marker; length=182bp
GGTTGCTGAGACATCAAACAATCAATCAACCAGTGGAGAAAAGGCTGAAG
AAGAAGAAGAAGAAGAAGAGAAAGAAGGAACCGCTGCTGCTCCTCGCAGG
AGGAGGCGTGACACTTAAAACAGAGGTGAATGGTGATAATCTGTTTTTAG
TATGGGCAAATTTTTGGGCTTTAGAAGTGGTC