HAU1031, HAU1031 (genetic_marker) gossypium spp

Marker Overview
NameHAU1031
AliasTA24488_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(AAC)6
PCR ConditionAnnealing temperature: 57.1
Primer 1HAU1031_F: GTCATCATCAGTACCGTCCA
Primer 2HAU1031_R: TGTCTTGAAGAAGGGAAGGA
Product Length293
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:12093694..12093986 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:13029736..13030028 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:11298287..11298579 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:10734843..10735134 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:9799126..9799418 +Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:12709384..12709676 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:49691512..49691804 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:18382962..18383254 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:58032592..58032884 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr9chromosomeDt_chr9:58037623..58037915 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:11373089..11373381 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:11328288..11328580 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold73565supercontigscaffold73565:163..455 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:11765422..11765714 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:12977375..12977667 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:11495934..11496226 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:12557444..12557736 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:11612895..11613187 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:11485070..11485362 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:13233008..13233300 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold8954supercontigscaffold8954:31969..32261 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10093supercontigscaffold10093:17679..17971 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:11682742..11683034 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:12347063..12347355 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:11678635..11678927 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:12912591..12912883 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:11642686..11642978 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:12762078..12762370 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:12010780..12011072 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:13027020..13027312 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:11556610..11556902 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:12641771..12642063 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:11846374..11846666 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:13247119..13247411 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:13541276..13541568 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:12548710..12549002 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:10789709..10790001 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:73382412..73382704 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:11209091..11209383 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:10136078..10136370 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:9832568..9832860 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:11490412..11490704 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:9973910..9974306 +Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:8455038..8455330 +Gossypium gossypioides (D6) genome ISU_v1n/a
E05chromosomeE05:13927872..13928164 +Gossypium stocksii (E1) genome NSF_v1n/a
F05chromosomeF05:11113048..11113340 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:183633223..183633515 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU1031 ID=HAU1031; Name=HAU1031; organism=Gossypium spp.; type=genetic_marker; length=293bp
GTCATCATCAGTACCGTCCACTGTTGCAGCAGCAGCATCTGCCTCTTTGA
TGAGACCCCACCAACAAACTCACGTGTCTGCCGATTCTGCTGGCACTAAC
AACAACACAACAACAGCTGGTTTTGGACTCGACTTGCCTTCACGTGAAGA
ACTAGATGTGGGTAGCAGCAGTGGCATTATCCACGGCTTGGCTCCTTTCG
GGAACCGTAAACCTGCTGCCAATGCAGGCGATGATGATGATGATAATAAT
AATATTGCTGGCTCAGGTGCTACTCCTTCCCTTCTTCAAGACA